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Movers RosettaScripts[[TerminiConstraintGenerator]] [[LegacyMonteCarloAssemblyMover]]NoDesignPackerPalette
[[include:packer_palette_NoDesignPackerPalette_type]]Non protein residues
[[include:packer_palette_NoDesignPackerPalette_type]]Noncanonical Amino Acids
[[include:packer_palette_NoDesignPackerPalette_type]]Noncanonical Backbones
[[include:packer_palette_NoDesignPackerPalette_type]]NonlocalAbinitio
[[include:packer_palette_NoDesignPackerPalette_type]]NoRepackDisulfidesOperation
[[include:packer_palette_NoDesignPackerPalette_type]]NormalModeRelaxMover
[[include:packer_palette_NoDesignPackerPalette_type]]Note_job_completed
[[include:packer_palette_NoDesignPackerPalette_type]]NOTES
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]]NTerminalAcetyltransferaseMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]]NtoCConstraintGenerator
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]]NubInitioLoopClosureMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]]NubInitioMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]]NullMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]]Old Sewing Documentation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]]OligomericAverageDegreeFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]]OneBodyFeaturesReporters
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]]Oop design
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]]OperateOnCertainResiduesOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]]OperateOnResidueSubsetOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]OperatorFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Opt e parallel doc
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Options overview
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Output options
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Outputting_results
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]OverloadExample
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]OversaturatedHbondAcceptorFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Overview of ResidueTypeSet
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Overview of Seattle Group energy function optimization project
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Owning pointers
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Packer task
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Packer_palette_CustomBaseTypePackerPalette_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Packer_palette_DefaultPackerPalette_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]Packer_palette_NoDesignPackerPalette_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]PackerPalette
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[NCAADefaultPackerPalette]] [[CustomVariantTypePackerPalette]]Packing options
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]PackRotamersMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]]PackRotamersMoverPartGreedyMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]]PackStatFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]]ParatopeEpitopeSiteConstraintMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]]ParatopeSiteConstraintMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]]Parse_rosetta_script
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]]ParsedProtocolMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]]PatchdockTransformMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]]PDB file
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]]PDBListExample
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]]PDBTrajectoryRecorderMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]]Pepspec
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]]PeptideCyclizeMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[CreateDistanceConstraint]] [[CreateAngleConstraint]] [[CreateTorsionConstraint]]PeptideDeriverFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]]PeptideInternalHbondsFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]]PeptideInternalHbondsMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]]PeptiDerive
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]]PeptideStubMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]]Performance Benchmarks
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]]PeriodicBoxMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]]PerResidueClashMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]]PerResidueDensityFitMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]]PerResidueEnergyMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]]PerResidueEsmProbabilitiesMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]]PerResidueRMSDMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]]PerResidueSasaMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]]PerResidueSolventExposure
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]]PertMinMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]]PerturbBundle
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]]PerturbBundleMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]]PerturbByBinsMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]]Phosphorylation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]]PlacementMinimizationMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]]PlaceOnLoopMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]]PlaceSimultaneouslyMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]]PlaceStubMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Platforms
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pmut scan parallel
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pocket measure
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pocket relax
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pocket suggest targets
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]PolarGroupBurialPyMolStringMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_property_reporter_EnergyReporter_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_property_reporter_FilterReporter_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_property_reporter_RMSDReporter_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_selector_AndSelector_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_selector_ClusterPoseSelector_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_selector_Filter_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_selector_OrSelector_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]Pose_selector_TopNByProperty_complex_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]PoseCommentFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]]PoseFromSequenceMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PoseInfoFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PostChemicalXRWChanges
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PrecalculatedClusteringResourceRequirements
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PredesignPerturbMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PrepackMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]Prepare template for mr
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PrepareForCentroidMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PrepareForFullatomMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]Preparing ligands
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]Preparing PDB files for non peptide polymers
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]Preparing structures
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PreProcessing
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PreProlineFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PreserveCBetaOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PreventRepackingOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]PreventResiduesFromRepackingOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]]ProbabilityConservationMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]]Profile tests
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]]ProhibitResidueProperties
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]]ProhibitSpecifiedBaseResidueTypes
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]]ProteinCoreOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]]ProteinInterfaceDesignOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]]ProteinInterfaceMSMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]]ProteinLigandInterfaceUpweighterOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]]ProteinMPNNProbabilitiesMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]]ProtocolSettingsMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]]PruneBuriedUnsatsOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]]PseudoPerplexityMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]]PSSM2BfactorMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]]PTMPredictionMetric
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]Pull requests
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]PyMOL
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]Pymol server
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]PyMolMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]PyRosetta
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]PyRosetta Toolkit
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]PyRosetta Toolkit GUI
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[images/pyrosetta_toolkit_main.png]] [[images/pyrosetta_toolkit_pymol.png]]Python coding conventions for Rosetta
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]PyTXMS
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]RampMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]]RandomizeBBByRamaPreProMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RandomMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RandomMutationMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RangeFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RBInMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RBOutMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]README
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[text like this|link target]]ReadPoseExtraScoreFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]ReadResfileFromDBOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]ReadResfileOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]Recces
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]Recommended_Design_TaskOperations
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RECON multistate design
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]ReferenceCount
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]Refinement of SEWING Assemblies
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[AssemblyConstraintsMover]] [[SEWING Dictionary]]RelativePoseFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RelativeSegmentFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]Relax
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]RelaxScript
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]]Release Notes
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[Worst9mer]] [[SewAnything]] [[rosetta_scripts_jd3]] [[atom_energy_breakdown]] [[parcs_ccs_calc]] [[loodo]] [[transform_loodo]] [[cl_complex_rescore]] [[ligand_discovery_search_protocol]] [[identify_ligand_motifs]] [[JumpForResidue Selector]] [[FilterValueMetric]] [[depc_ms]] [[TrueFalseFilter]] [[SequenceMover]] [[lk_dome]] [[ShakeStructureMover]] [[DEEROptimizeCoordsMover]] [[ProteinMPNNMover]] [[SecretionOptimizationMover]] [[Degreaser]] [[Chemistry]] [[ApplyChemistyMover]] [[PatchChemistry]] [[LipidMemGrid]] [[MixedMonteCarlo]] [[BalancedKicMover]] [[BFactorSelector]] [[EMERALD]] [[GenKIC]] [[Jacobi loop closure]] [[BuriedUnsatisfiedPolarsCalculator]] [[SapConstraintEnergy]] [[AddSapConstraintMover]] [[AddSapMathConstraintMover]] [[helical_bundle_predict]] [[FixAllLoopsMover]] [[NearNativeLoopCloser]] [[StructProfileMover]] [[energy_based_clustering]] [[CompoundStatement]] [[dumpPDB]] [[ReplicaDock2.0]] [[SimpleCycpepPredictApplication]] [[SampleRotamersFromPDB]] [[RDKitMetric]] [[NamedAtomPairConstraints]] [[PARCS]] [[density_tools]] [[per_residue_solvent_exposure]] [[RunSimpleMetricsMover]] [[DumpPDB]] [[BCL]] [[map_symmetric_res_pairs]] [[SidechainNeighborCountMetric]] [[Interface]] [[InterfaceInfo]] [[InterchainPotential]] [[ReferenceEnergy]] [[VoidsPenalty]] [[HydroxylTorsionPotential]] [[RamaPrePro]] [[HybridizeProtocol]] [[NamedDihedralConstraint]] [[GlycanSequonSelector]] [[NearNativeLoop closure]] [[SeqprofConsensus]] [[PNear]] [[SliceResidueSelector]] [[cartesian_ddg]] [[SymmetricalResidueSelector]] [[RosettaNMR]] [[cartesianddG]] [[protein_data_bank_diagnostic]] [[ShapeSimilarity]] [[ElectrostaticSimilarity]] [[SideChainNeighborCountMetric]] [[BuriedUnsatHbonds2]] [[LogicResidueSelector]] [[SapScore]] [[SimpleMetricSelector]] [[hrf_dynamics]] [[FavorCouplingTensor]] [[FoldTreeFromMotif]] [[TargetClashEnergy]] [[GenericBondedPotential]] [[DEEROverlapMethod]] [[LinearPenaltyFunction]] [[SequenceSymmetricAnnealer]] [[RamachandranEnergy]] [[EPRSpinLabel]] [[RNA_BasePairHandler]] [[MoverFilterPair]] [[TimingProfileMetric]] [[IndexSelector]] [[ResidueTypeLinkingConstraint]] [[Multistage RosettaScripts]] [[StoredRotamerLibrarySpecification]] [[SmartAnnealer]] [[BuildingBlockInterface]] [[TaskAwareSymmMinMover]] [[FullAtomDisulfideEnergy]] [[RepackWithoutLigand]] [[ShuffleFileDistributor]] [[HybridizeFoldTreeDynamic]] [[SSElementSelector]] [[MonomerDesign2019]] [[AcceptToBestMover]] [[ContactMolecularSurface]] [[DumpTrajectoryEnergy]] [[ResidueType]] [[MutableResidueType]] [[GreenPacker]] [[TryDisulfidePermutations]] [[baseEtableEnergy]] [[InterfaceAnalyzer]] [[MonteCarlo]] [[Residue]] [[CompoundFilter]] [[LoadDensityMapMover]] [[ApproximateBuriedUnsat]] [[FragmentStore]] [[mhc_epitope]] [[ddG_filter]] [[PDBInfoLabel]] [[PhiSelector]] [[PruneBuriedUnsats]] [[NmerRefEnergy]] [[AntibodyModelerProtocol]] [[hbnet]] [[mp_domain_assembly]] [[pHVariantTaskOperation]] [[franklin2019]] [[PDBInfoLabels]] [[RingConformerSet]] [[mmTF]] [[NMerSVMEnergy]] [[InteractionGraph]] [[RotamerSetsObjects]] [[JD3]] [[CoupledMoves]] [[AtomicContactCount]] [[BuriedUnsatisfiedHBonds]] [[BuriedUnsatHbondFilter]] [[approximate_buried_unsat_energy]] [[NearNativeLoopClosure]] [[StructureProfile]] [[CovalentLabelingEnergy]] [[ForceDisulfideMover]] [[ShapeGrid]] [[HBnet]] [[ReadResfileFromDB]] [[ProteinProteinInterfaceUpweighter]] [[MathVectors]] [[LinearMemoryInteractionGraph]] [[PrimarySequenceNeighborhoodSelector]] [[BoltzmannRotamerMover]] [[CoupledMovesProtocol]] [[RandomTorsionMover]] [[xyzStripeHash]] [[SugarBBEnergy]] [[structure_store]] [[BackboneMover]] [[DisulfideInsertionMover]] [[SymmetricEnergies]] [[SymmetricConformation]] [[MoveMapFactory]] [[DensityFitMetric]] [[DensityFitSelector]] [[AtomLevelHBondGraph]] [[AtomicDepth]] [[ResidueIndexDescription]] [[RelaxScripts]] [[FindGlycanSeqonsMover]] [[ClashBasedRepackShell]] [[UnsatSel]] [[cart_bonded]] [[BuriedUnsatisfiedHbondFilter]] [[WriteSSEMover]] [[BindingSiteConstraint]] [[MakeLatticeMover]] [[BuriedUnsatFilter]] [[EllipsoidalRandomizationMover]] [[RotamerSetFactory]] [[StrandCurvatureByLevels]] [[dock_glycans]] [[Hydrate/SPaDES protocol]] [[LayerDesign]] [[buried_apolar_area_filter]] [[LigandMetalContactSelector]] [[DockingSlideIntoContact]] [[NeighborhoodResidueSelector]] [[RandomResidueSelector]] [[SelectResiduesByLayer]] [[BuriedSurfaceArea]] [[BondedResidueSelector]] [[HBondSelector]] [[TrueResidueSelector]] [[SecondaryStructureSelector]] [[AtomPairConstraint]] [[SegmentedAtomPairConstraint]] [[UnsatSelector]] [[PolymerBondedEnergyContainer]] [[MonteCarloInterface]] [[GlycanTreeRelax]] [[GlycanPositionSelector]] [[RandomGlycanFoliageSelector]]ReleaseConstraintFromResidueMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]]ReloadingFunFolDes
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]]Remodel
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]]Remodel
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]]RemodelMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]]RemoveConstraintsMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]]RemoveMetalConnectionsMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]]Renamed and Deprecated Options
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]]RenderGridsToKinemageMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]]RepackingRefinerMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]]RepackMinimizeMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]]RepackWithoutLigandFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]]Repeat stretch energy
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]]RepeatPropagationMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]]RepeatProteinRelax
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]]ReplaceRegionMover
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[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]]ReportFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]]ReportToDBMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]]ReportXYZ
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]]ResetBaselineMover
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]]Resfile reader
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]]ResfileCommandOperation
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Resfiles
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Resfilter_AllResFilter_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Resfilter_AnyResFilter_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Resfilter_ChainIs_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Resfilter_ChainIsnt_type
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Resfilter_NoResFilter_type
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[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Residue energy breakdown
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Residue Level TaskOperations
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]Residue Params file
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]ResidueBurialFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]ResidueCountFilter
[[include:packer_palette_NoDesignPackerPalette_type]] [[include:mover_PackRotamersMover_type]] [[include:mover_NTerminalAcetyltransferaseMover_type]] [[include:mover_NubInitioLoopClosureMover_type]] [[include:mover_NubInitioMover_type]] [[include:Residue-Level-TaskOperations]] [[include:to_OperateOnResidueSubset_type]] [[include:mover_PackRotamersMoverPartGreedy_type]] [[include:mover_ParsedProtocol_type]] [[include:filter_PeptideInternalHbondsFilter_type]] [[include:simple_metric_PeptideInternalHbondsMetric_type]] [[include:mover_PeptideStubMover_type]] [[include:simple_metric_PerResidueClashMetric_type]] [[include:simple_metric_PerResidueDensityFitMetric_type]] [[include:simple_metric_PerResidueEnergyMetric_type]] [[include:simple_metric_PerResidueEsmProbabilitiesMetric_type]] [[include:simple_metric_PerResidueRMSDMetric_type]] [[include:simple_metric_PerResidueSasaMetric_type]] [[include:mover_PertMinMover_type]] [[include:mover_PerturbBundle_type]] [[include:../../xsd/mover_PlaceStub_type]] [[include:mover_PoseFromSequenceMover_type]] [[include:simple_metric_ProbabilityConservationMetric_type]] [[include:to_ProhibitResidueProperties_type]] [[include:to_ProhibitSpecifiedBaseResidueTypes_type]] [[include:simple_metric_ProteinMPNNProbabilitiesMetric_type]] [[include:simple_metric_ProtocolSettingsMetric_type]] [[include:simple_metric_PseudoPerplexityMetric_type]] [[include:simple_metric_PTMPredictionMetric_type]] [[include:mover_RandomizeBBByRamaPrePro_type]] [[include:mover_ReleaseConstraintFromResidueMover_type]] [[include:mover_RemoveMetalConnectionsMover_type]] [[include:mover_RepeatPropagationMover_type]] [[include:mover_ReplaceRegionMover_type]] [[include:to_ResfileCommandOperation_type]]