toolbox → core Relation

File in src/protocols/toolbox	Includes file in src/core
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	id / AtomID.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	id / AtomID_Map.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	kinematics / FoldTree.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	pose / Pose.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	conformation / Residue.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	chemical / ResidueTypeSet.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	scoring / rms_util.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	util / SwitchResidueTypeSet.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	types.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.cc	pose / util.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.hh	pose / Pose.fwd.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.hh	conformation / Residue.fwd.hh
match_enzdes_util / AlignPoseToInvrotTreeMover.hh	types.hh
match_enzdes_util / AllowedSeqposForGeomCst.cc	pose / Pose.hh
match_enzdes_util / AllowedSeqposForGeomCst.cc	conformation / Residue.hh
match_enzdes_util / AllowedSeqposForGeomCst.cc	types.hh
match_enzdes_util / AllowedSeqposForGeomCst.hh	pose / Pose.fwd.hh
match_enzdes_util / AllowedSeqposForGeomCst.hh	types.hh
AllowInsert.cc	id / AtomID.hh
AllowInsert.cc	conformation / Conformation.hh
AllowInsert.cc	kinematics / FoldTree.hh
AllowInsert.cc	id / NamedAtomID.hh
AllowInsert.cc	pose / Pose.hh
AllowInsert.cc	conformation / Residue.hh
AllowInsert.cc	chemical / ResidueType.hh
AllowInsert.cc	types.hh
AllowInsert.cc	pose / util.hh
AllowInsert.hh	id / AtomID.fwd.hh
AllowInsert.hh	conformation / Conformation.fwd.hh
AllowInsert.hh	kinematics / FoldTree.fwd.hh
AllowInsert.hh	id / NamedAtomID.fwd.hh
AllowInsert.hh	pose / Pose.fwd.hh
AllowInsert.hh	id / TorsionID.fwd.hh
AllowInsert.hh	types.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.cc	chemical / AtomType.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.cc	pose / metrics / CalculatorFactory.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.cc	pose / Pose.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.cc	conformation / Residue.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.cc	pose / metrics / simple_calculators / SasaCalculator.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.hh	id / AtomID_Map.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / BuriedUnsatisfiedPolarsCalculator.hh	types.hh
pose_metric_calculators / CatPiCalculator.cc	pose / Pose.hh
pose_metric_calculators / CatPiCalculator.cc	conformation / Residue.hh
pose_metric_calculators / CatPiCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / CatPiCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / CatPiCalculator.hh	types.hh
pose_metric_calculators / ChargeCalculator.cc	chemical / AA.hh
pose_metric_calculators / ChargeCalculator.cc	pose / Pose.hh
pose_metric_calculators / ChargeCalculator.cc	chemical / ResidueType.hh
pose_metric_calculators / ChargeCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / ChargeCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / ChargeCalculator.hh	types.hh
pose_metric_calculators / ClashCountCalculator.cc	scoring / AtomVDW.hh
pose_metric_calculators / ClashCountCalculator.cc	chemical / ChemicalManager.fwd.hh
pose_metric_calculators / ClashCountCalculator.cc	pose / Pose.hh
pose_metric_calculators / ClashCountCalculator.cc	conformation / Residue.hh
pose_metric_calculators / ClashCountCalculator.cc	scoring / ScoringManager.hh
pose_metric_calculators / ClashCountCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / ClashCountCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / ClashCountCalculator.hh	types.hh
Cluster.hh	types.hh
Cluster.impl.hh	io / silent / SilentStruct.hh
Cluster.impl.hh	types.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.cc	pose / metrics / CalculatorFactory.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.cc	scoring / Energies.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.cc	scoring / EnergyGraph.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.cc	scoring / LREnergyContainer.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.cc	scoring / methods / Methods.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.cc	pose / Pose.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.cc	scoring / ScoreType.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.hh	scoring / EnergyMap.fwd.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.hh	scoring / EnergyMap.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.hh	types.hh
pose_metric_calculators / DecomposeAndReweightEnergiesCalculator.hh	graph / UpperEdgeGraph.hh
DecoySetEvaluation.cc	scoring / constraints / BoundConstraint.hh
DecoySetEvaluation.cc	scoring / constraints / ConstraintSet.hh
DecoySetEvaluation.cc	scoring / constraints / LocalCoordinateConstraint.hh
DecoySetEvaluation.cc	scoring / constraints / NamedAtomPairConstraint.hh
DecoySetEvaluation.cc	id / NamedStubID.hh
DecoySetEvaluation.cc	pose / Pose.hh
DecoySetEvaluation.cc	conformation / Residue.hh
DecoySetEvaluation.cc	io / silent / SilentFileData.hh
DecoySetEvaluation.cc	types.hh
DecoySetEvaluation.cc	pose / util.hh
DecoySetEvaluation.hh	scoring / constraints / ConstraintSet.fwd.hh
DecoySetEvaluation.hh	pose / Pose.hh
DecoySetEvaluation.hh	io / silent / SilentFileData.fwd.hh
DecoySetEvaluation.hh	types.hh
DecoySetEvaluation.impl.hh	pose / Pose.hh
DecoySetEvaluation.impl.hh	conformation / Residue.hh
DecoySetEvaluation.impl.hh	types.hh
task_operations / DesignAroundOperation.cc	conformation / Conformation.hh
task_operations / DesignAroundOperation.cc	pack / task / operation / OperateOnCertainResidues.hh
task_operations / DesignAroundOperation.cc	pose / Pose.hh
task_operations / DesignAroundOperation.cc	pack / task / operation / ResLvlTaskOperations.hh
task_operations / DesignAroundOperation.cc	pose / selection.hh
task_operations / DesignAroundOperation.cc	types.hh
task_operations / DesignAroundOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / DesignAroundOperation.hh	pose / Pose.fwd.hh
task_operations / DesignAroundOperation.hh	types.hh
task_operations / DesignAroundOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
match_enzdes_util / EnzConstraintIO.cc	chemical / ChemicalManager.hh
match_enzdes_util / EnzConstraintIO.cc	scoring / constraints / Constraint.hh
match_enzdes_util / EnzConstraintIO.cc	scoring / constraints / Constraints.hh
match_enzdes_util / EnzConstraintIO.cc	scoring / constraints / ConstraintSet.hh
match_enzdes_util / EnzConstraintIO.cc	pose / PDBInfo.hh
match_enzdes_util / EnzConstraintIO.cc	pose / PDBPoseMap.hh
match_enzdes_util / EnzConstraintIO.cc	pose / Pose.hh
match_enzdes_util / EnzConstraintIO.cc	conformation / Residue.hh
match_enzdes_util / EnzConstraintIO.cc	scoring / ScoreFunction.hh
match_enzdes_util / EnzConstraintIO.hh	pose / Pose.fwd.hh
match_enzdes_util / EnzConstraintIO.hh	chemical / ResidueTypeSet.fwd.hh
match_enzdes_util / EnzConstraintIO.hh	scoring / ScoreFunction.fwd.hh
match_enzdes_util / EnzConstraintIO.hh	id / SequenceMapping.fwd.hh
match_enzdes_util / EnzConstraintIO.hh	types.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / AmbiguousConstraint.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / AngleConstraint.hh
match_enzdes_util / EnzConstraintParameters.cc	id / AtomID.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / AtomPairConstraint.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / BoundConstraint.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / CharmmPeriodicFunc.hh
match_enzdes_util / EnzConstraintParameters.cc	chemical / ChemicalManager.hh
match_enzdes_util / EnzConstraintParameters.cc	conformation / Conformation.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / Constraint.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / Constraints.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / ConstraintSet.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / DihedralConstraint.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / Energies.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / Func.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / constraints / MultiConstraint.hh
match_enzdes_util / EnzConstraintParameters.cc	chemical / Patch.hh
match_enzdes_util / EnzConstraintParameters.cc	pose / PDBInfo.hh
match_enzdes_util / EnzConstraintParameters.cc	pose / Pose.hh
match_enzdes_util / EnzConstraintParameters.cc	pose / Remarks.hh
match_enzdes_util / EnzConstraintParameters.cc	chemical / ResidueTypeSet.hh
match_enzdes_util / EnzConstraintParameters.cc	scoring / ScoreFunction.hh
match_enzdes_util / EnzConstraintParameters.cc	id / SequenceMapping.hh
match_enzdes_util / EnzConstraintParameters.cc	pack / dunbrack / SingleLigandRotamerLibrary.hh
match_enzdes_util / EnzConstraintParameters.cc	types.hh
match_enzdes_util / EnzConstraintParameters.cc	pose / util.hh
match_enzdes_util / EnzConstraintParameters.hh	scoring / constraints / Constraint.fwd.hh
match_enzdes_util / EnzConstraintParameters.hh	scoring / constraints / Func.fwd.hh
match_enzdes_util / EnzConstraintParameters.hh	pose / Pose.fwd.hh
match_enzdes_util / EnzConstraintParameters.hh	chemical / ResidueTypeSet.fwd.hh
match_enzdes_util / EnzConstraintParameters.hh	scoring / ScoreFunction.fwd.hh
match_enzdes_util / EnzConstraintParameters.hh	id / SequenceMapping.fwd.hh
match_enzdes_util / EnzConstraintParameters.hh	types.hh
match_enzdes_util / EnzCstTemplateRes.cc	chemical / AA.hh
match_enzdes_util / EnzCstTemplateRes.cc	id / AtomID.hh
match_enzdes_util / EnzCstTemplateRes.cc	chemical / AtomType.hh
match_enzdes_util / EnzCstTemplateRes.cc	pose / Pose.hh
match_enzdes_util / EnzCstTemplateRes.cc	conformation / Residue.hh
match_enzdes_util / EnzCstTemplateRes.cc	chemical / ResidueTypeSet.hh
match_enzdes_util / EnzCstTemplateRes.cc	id / SequenceMapping.hh
match_enzdes_util / EnzCstTemplateRes.hh	id / AtomID.fwd.hh
match_enzdes_util / EnzCstTemplateRes.hh	pose / Pose.fwd.hh
match_enzdes_util / EnzCstTemplateRes.hh	conformation / Residue.fwd.hh
match_enzdes_util / EnzCstTemplateRes.hh	chemical / ResidueType.fwd.hh
match_enzdes_util / EnzCstTemplateRes.hh	chemical / ResidueTypeSet.fwd.hh
match_enzdes_util / EnzCstTemplateRes.hh	id / SequenceMapping.fwd.hh
match_enzdes_util / EnzdesCacheableObserver.cc	pose / datacache / CacheableObserverType.hh
match_enzdes_util / EnzdesCacheableObserver.cc	conformation / Conformation.hh
match_enzdes_util / EnzdesCacheableObserver.cc	conformation / signals / LengthEvent.hh
match_enzdes_util / EnzdesCacheableObserver.cc	pose / datacache / ObserverCache.hh
match_enzdes_util / EnzdesCacheableObserver.cc	pack / task / PackerTask.hh
match_enzdes_util / EnzdesCacheableObserver.cc	pose / Pose.hh
match_enzdes_util / EnzdesCacheableObserver.cc	conformation / Residue.hh
match_enzdes_util / EnzdesCacheableObserver.cc	scoring / constraints / ResidueTypeConstraint.hh
match_enzdes_util / EnzdesCacheableObserver.cc	id / SequenceMapping.hh
match_enzdes_util / EnzdesCacheableObserver.cc	sequence / SequenceProfile.hh
match_enzdes_util / EnzdesCacheableObserver.cc	scoring / constraints / SequenceProfileConstraint.hh
match_enzdes_util / EnzdesCacheableObserver.hh	pose / datacache / CacheableObserver.hh
match_enzdes_util / EnzdesCacheableObserver.hh	scoring / constraints / Constraint.fwd.hh
match_enzdes_util / EnzdesCacheableObserver.hh	conformation / signals / LengthEvent.fwd.hh
match_enzdes_util / EnzdesCacheableObserver.hh	pack / task / PackerTask.fwd.hh
match_enzdes_util / EnzdesCacheableObserver.hh	pose / Pose.fwd.hh
match_enzdes_util / EnzdesCacheableObserver.hh	conformation / Residue.fwd.hh
match_enzdes_util / EnzdesCacheableObserver.hh	types.hh
match_enzdes_util / EnzdesCstCache.cc	id / AtomID.hh
match_enzdes_util / EnzdesCstCache.cc	scoring / constraints / Constraint.hh
match_enzdes_util / EnzdesCstCache.cc	pose / Pose.hh
match_enzdes_util / EnzdesCstCache.cc	chemical / ResidueType.hh
match_enzdes_util / EnzdesCstCache.cc	id / SequenceMapping.hh
match_enzdes_util / EnzdesCstCache.hh	scoring / constraints / Constraint.fwd.hh
match_enzdes_util / EnzdesCstCache.hh	pose / Pose.fwd.hh
match_enzdes_util / EnzdesCstCache.hh	id / SequenceMapping.fwd.hh
match_enzdes_util / EnzdesCstCache.hh	types.hh
match_enzdes_util / EnzdesLoopsFile.hh	types.hh
match_enzdes_util / EnzdesSeqRecoveryCache.cc	pose / Pose.hh
match_enzdes_util / EnzdesSeqRecoveryCache.cc	conformation / Residue.hh
match_enzdes_util / EnzdesSeqRecoveryCache.cc	id / SequenceMapping.hh
match_enzdes_util / EnzdesSeqRecoveryCache.cc	types.hh
match_enzdes_util / EnzdesSeqRecoveryCache.hh	pose / Pose.fwd.hh
match_enzdes_util / EnzdesSeqRecoveryCache.hh	id / SequenceMapping.fwd.hh
match_enzdes_util / EnzdesSeqRecoveryCache.hh	types.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	kinematics / FoldTree.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / hbonds / HBondSet.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	kinematics / Jump.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	kinematics / MoveMap.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	pose / Pose.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	conformation / Residue.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	conformation / ResidueFactory.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	chemical / ResidueTypeSet.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / ScoreFunction.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.hh	scoring / ScoreFunction.fwd.hh
pose_metric_calculators / ExplicitWaterUnsatisfiedPolarsCalculator.hh	types.hh
match_enzdes_util / ExternalGeomSampler.hh	types.hh
pose_metric_calculators / FragQualCalculator.cc	chemical / ChemicalManager.fwd.hh
pose_metric_calculators / FragQualCalculator.cc	fragment / FragSet.hh
pose_metric_calculators / FragQualCalculator.cc	fragment / Frame.hh
pose_metric_calculators / FragQualCalculator.cc	fragment / FrameIterator.hh
pose_metric_calculators / FragQualCalculator.cc	fragment / FrameIteratorWorker_.hh
pose_metric_calculators / FragQualCalculator.cc	kinematics / Jump.hh
pose_metric_calculators / FragQualCalculator.cc	pose / Pose.hh
pose_metric_calculators / FragQualCalculator.cc	chemical / ResidueType.hh
pose_metric_calculators / FragQualCalculator.cc	scoring / rms_util.hh
pose_metric_calculators / FragQualCalculator.cc	util / SwitchResidueTypeSet.hh
pose_metric_calculators / FragQualCalculator.cc	id / types.hh
pose_metric_calculators / FragQualCalculator.hh	fragment / FragSet.fwd.hh
pose_metric_calculators / FragQualCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / FragQualCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / FragQualCalculator.hh	types.hh
pose_metric_calculators / HPatchCalculator.cc	id / AtomID.hh
pose_metric_calculators / HPatchCalculator.cc	pose / Pose.hh
pose_metric_calculators / HPatchCalculator.cc	chemical / ResidueType.hh
pose_metric_calculators / HPatchCalculator.cc	pack / interaction_graph / SurfacePotential.hh
pose_metric_calculators / HPatchCalculator.hh	id / AtomID.fwd.hh
pose_metric_calculators / HPatchCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / HPatchCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / HPatchCalculator.hh	types.hh
IGEdgeReweighters.cc	pack / task / PackerTask.hh
IGEdgeReweighters.cc	pose / Pose.hh
IGEdgeReweighters.cc	conformation / Residue.hh
IGEdgeReweighters.hh	pack / task / IGEdgeReweightContainer.hh
InteratomicVarianceMatrix.cc	types.hh
InteratomicVarianceMatrix.hh	types.hh
task_operations / InterfaceTaskOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / InterfaceTaskOperation.hh	types.hh
pose_metric_calculators / InterGroupNeighborsCalculator.cc	conformation / find_neighbors.hh
pose_metric_calculators / InterGroupNeighborsCalculator.cc	graph / Graph.hh
pose_metric_calculators / InterGroupNeighborsCalculator.cc	conformation / PointGraph.hh
pose_metric_calculators / InterGroupNeighborsCalculator.cc	conformation / PointGraphData.hh
pose_metric_calculators / InterGroupNeighborsCalculator.cc	pose / Pose.hh
pose_metric_calculators / InterGroupNeighborsCalculator.cc	graph / UpperEdgeGraph.hh
pose_metric_calculators / InterGroupNeighborsCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / InterGroupNeighborsCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / InterGroupNeighborsCalculator.hh	types.hh
match_enzdes_util / InvrotTarget.cc	scoring / constraints / MultiConstraint.hh
match_enzdes_util / InvrotTarget.cc	pose / Pose.hh
match_enzdes_util / InvrotTarget.cc	conformation / Residue.hh
match_enzdes_util / InvrotTree.cc	pack / rotamer_set / bb_independent_rotamers.hh
match_enzdes_util / InvrotTree.cc	scoring / constraints / Constraint.hh
match_enzdes_util / InvrotTree.cc	pose / Pose.hh
match_enzdes_util / InvrotTree.cc	io / pdb / pose_io.hh
match_enzdes_util / InvrotTree.cc	conformation / Residue.hh
match_enzdes_util / InvrotTree.cc	conformation / ResidueFactory.hh
match_enzdes_util / InvrotTree.cc	chemical / ResidueType.hh
match_enzdes_util / InvrotTree.hh	scoring / constraints / Constraint.fwd.hh
match_enzdes_util / InvrotTree.hh	pose / Pose.fwd.hh
match_enzdes_util / InvrotTree.hh	types.hh
match_enzdes_util / InvrotTreeNode.cc	scoring / constraints / AmbiguousConstraint.hh
match_enzdes_util / InvrotTreeNode.cc	conformation / Atom.hh
match_enzdes_util / InvrotTreeNode.cc	scoring / constraints / MultiConstraint.hh
match_enzdes_util / InvrotTreeNode.cc	pose / Pose.hh
match_enzdes_util / InvrotTreeNode.cc	conformation / Residue.hh
match_enzdes_util / InvrotTreeNode.hh	id / AtomID.fwd.hh
match_enzdes_util / InvrotTreeNodeBase.cc	conformation / Residue.hh
match_enzdes_util / InvrotTreeNodeBase.hh	scoring / constraints / Constraint.fwd.hh
match_enzdes_util / InvrotTreeNodeBase.hh	pose / Pose.fwd.hh
match_enzdes_util / InvrotTreeNodeBase.hh	conformation / Residue.fwd.hh
match_enzdes_util / InvrotTreeNodeBase.hh	types.hh
task_operations / JointSequenceOperation.cc	chemical / AA.hh
task_operations / JointSequenceOperation.cc	conformation / Conformation.hh
task_operations / JointSequenceOperation.cc	import_pose / import_pose.hh
task_operations / JointSequenceOperation.cc	pack / task / PackerTask.hh
task_operations / JointSequenceOperation.cc	pose / PDBInfo.hh
task_operations / JointSequenceOperation.cc	pose / Pose.hh
task_operations / JointSequenceOperation.cc	chemical / ResidueType.hh
task_operations / JointSequenceOperation.cc	sequence / Sequence.hh
task_operations / JointSequenceOperation.cc	conformation / symmetry / SymmetryInfo.hh
task_operations / JointSequenceOperation.cc	pack / rotamer_set / UnboundRotamersOperation.hh
task_operations / JointSequenceOperation.cc	pose / symmetry / util.hh
task_operations / JointSequenceOperation.cc	sequence / util.hh
task_operations / JointSequenceOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / JointSequenceOperation.hh	sequence / Sequence.fwd.hh
task_operations / JointSequenceOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / JointSequenceOperation.hh	types.hh
task_operations / JointSequenceOperation.hh	pack / rotamer_set / UnboundRotamersOperation.fwd.hh
task_operations / JointSequenceOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
KCluster.cc	io / silent / SilentFileData.hh
KCluster.hh	types.hh
task_operations / LayerOperations.cc	conformation / Conformation.hh
task_operations / LayerOperations.cc	scoring / dssp / Dssp.hh
task_operations / LayerOperations.cc	pack / task / operation / OperateOnCertainResidues.hh
task_operations / LayerOperations.cc	pack / task / PackerTask.hh
task_operations / LayerOperations.cc	pose / Pose.hh
task_operations / LayerOperations.cc	pack / task / operation / ResLvlTaskOperations.hh
task_operations / LayerOperations.hh	chemical / AA.hh
task_operations / LayerOperations.hh	id / AtomID_Map.hh
task_operations / LayerOperations.hh	chemical / AtomType.hh
task_operations / LayerOperations.hh	pack / task / PackerTask.fwd.hh
task_operations / LayerOperations.hh	pose / Pose.fwd.hh
task_operations / LayerOperations.hh	scoring / sasa.hh
task_operations / LayerOperations.hh	pack / task / operation / TaskOperation.hh
task_operations / LayerOperations.hh	types.hh
task_operations / LayerOperationsCreator.hh	pack / task / operation / TaskOperationCreator.hh
match_enzdes_util / LigandConformer.cc	id / AtomID.hh
match_enzdes_util / LigandConformer.cc	chemical / AtomType.hh
match_enzdes_util / LigandConformer.cc	conformation / Residue.hh
match_enzdes_util / LigandConformer.cc	chemical / ResidueConnection.hh
match_enzdes_util / LigandConformer.hh	id / AtomID.fwd.hh
match_enzdes_util / LigandConformer.hh	conformation / Residue.fwd.hh
match_enzdes_util / LigandConformer.hh	chemical / ResidueType.fwd.hh
match_enzdes_util / LigandConformer.hh	types.hh
task_operations / LimitAromaChi2Operation.cc	chemical / AA.hh
task_operations / LimitAromaChi2Operation.cc	pack / task / PackerTask.hh
task_operations / LimitAromaChi2Operation.cc	conformation / Residue.hh
task_operations / LimitAromaChi2Operation.cc	pack / rotamer_set / RotamerSet.hh
task_operations / LimitAromaChi2Operation.cc	pack / rotamer_set / RotamerSetOperation.hh
task_operations / LimitAromaChi2Operation.cc	pack / task / operation / TaskOperation.hh
task_operations / LimitAromaChi2Operation.hh	pack / dunbrack / ChiSet.fwd.hh
task_operations / LimitAromaChi2Operation.hh	graph / Graph.fwd.hh
task_operations / LimitAromaChi2Operation.hh	pack / task / PackerTask.fwd.hh
task_operations / LimitAromaChi2Operation.hh	pose / Pose.fwd.hh
task_operations / LimitAromaChi2Operation.hh	pack / rotamer_set / RotamerSet.fwd.hh
task_operations / LimitAromaChi2Operation.hh	pack / rotamer_set / RotamerSetOperation.hh
task_operations / LimitAromaChi2Operation.hh	scoring / ScoreFunction.fwd.hh
task_operations / LimitAromaChi2Operation.hh	pack / task / operation / TaskOperation.hh
task_operations / LimitAromaChi2OperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
match_enzdes_util / MatchConstraintFileInfo.cc	pack / rotamer_set / bb_independent_rotamers.hh
match_enzdes_util / MatchConstraintFileInfo.cc	chemical / Patch.hh
match_enzdes_util / MatchConstraintFileInfo.cc	conformation / Residue.hh
match_enzdes_util / MatchConstraintFileInfo.cc	chemical / ResidueTypeSet.hh
match_enzdes_util / MatchConstraintFileInfo.cc	pose / util.hh
match_enzdes_util / MatchConstraintFileInfo.cc	chemical / VariantType.hh
match_enzdes_util / MatchConstraintFileInfo.hh	pose / Pose.fwd.hh
match_enzdes_util / MatchConstraintFileInfo.hh	conformation / Residue.fwd.hh
match_enzdes_util / MatchConstraintFileInfo.hh	chemical / ResidueType.fwd.hh
match_enzdes_util / MatchConstraintFileInfo.hh	chemical / ResidueTypeSet.fwd.hh
match_enzdes_util / MatchConstraintFileInfo.hh	types.hh
pose_metric_calculators / MetricValueGetter.cc	pose / Pose.hh
pose_metric_calculators / MetricValueGetter.hh	pose / Pose.fwd.hh
task_operations / ModifyAnnealer.cc	pack / task / PackerTask.hh
task_operations / ModifyAnnealer.hh	pack / task / PackerTask.fwd.hh
task_operations / ModifyAnnealer.hh	pose / Pose.fwd.hh
task_operations / ModifyAnnealer.hh	pack / task / operation / TaskOperation.hh
task_operations / ModifyAnnealer.hh	types.hh
task_operations / ModifyAnnealerCreator.hh	pack / task / operation / TaskOperationCreator.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.cc	conformation / find_neighbors.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.cc	graph / Graph.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.cc	conformation / PointGraph.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.cc	conformation / PointGraphData.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.cc	pose / Pose.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.cc	graph / UpperEdgeGraph.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / NeighborhoodByDistanceCalculator.hh	types.hh
pose_metric_calculators / NeighborsByDistanceCalculator.cc	conformation / find_neighbors.hh
pose_metric_calculators / NeighborsByDistanceCalculator.cc	conformation / PointGraph.hh
pose_metric_calculators / NeighborsByDistanceCalculator.cc	conformation / PointGraphData.hh
pose_metric_calculators / NeighborsByDistanceCalculator.cc	pose / Pose.hh
pose_metric_calculators / NeighborsByDistanceCalculator.cc	graph / UpperEdgeGraph.hh
pose_metric_calculators / NeighborsByDistanceCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / NeighborsByDistanceCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / NeighborsByDistanceCalculator.hh	types.hh
pose_metric_calculators / NonlocalContactsCalculator.cc	scoring / Energies.hh
pose_metric_calculators / NonlocalContactsCalculator.cc	scoring / EnergyGraph.hh
pose_metric_calculators / NonlocalContactsCalculator.cc	scoring / EnergyMap.hh
pose_metric_calculators / NonlocalContactsCalculator.cc	graph / Graph.hh
pose_metric_calculators / NonlocalContactsCalculator.cc	pose / Pose.hh
pose_metric_calculators / NonlocalContactsCalculator.cc	chemical / ResidueType.hh
pose_metric_calculators / NonlocalContactsCalculator.hh	graph / Graph.fwd.hh
pose_metric_calculators / NonlocalContactsCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / NonlocalContactsCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / NonlocalContactsCalculator.hh	types.hh
pose_metric_calculators / NumberHBondsCalculator.cc	chemical / AtomType.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / Energies.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / EnergyGraph.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / EnergyMap.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / hbonds / HBondDatabase.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / hbonds / hbonds.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / hbonds / HBondSet.hh
pose_metric_calculators / NumberHBondsCalculator.cc	pose / Pose.hh
pose_metric_calculators / NumberHBondsCalculator.cc	conformation / Residue.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / ScoreType.hh
pose_metric_calculators / NumberHBondsCalculator.cc	scoring / TenANeighborGraph.hh
pose_metric_calculators / NumberHBondsCalculator.hh	id / AtomID_Map.hh
pose_metric_calculators / NumberHBondsCalculator.hh	scoring / EnergyMap.fwd.hh
pose_metric_calculators / NumberHBondsCalculator.hh	scoring / hbonds / HBondDatabase.hh
pose_metric_calculators / NumberHBondsCalculator.hh	scoring / hbonds / HBondSet.fwd.hh
pose_metric_calculators / NumberHBondsCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / NumberHBondsCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / NumberHBondsCalculator.hh	types.hh
pose_metric_calculators / PackstatCalculator.cc	scoring / packstat / compute_sasa.hh
pose_metric_calculators / PackstatCalculator.cc	pose / Pose.hh
pose_metric_calculators / PackstatCalculator.cc	chemical / ResidueType.hh
pose_metric_calculators / PackstatCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / PackstatCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / PackstatCalculator.hh	types.hh
pose_metric_calculators / PiPiCalculator.cc	pose / Pose.hh
pose_metric_calculators / PiPiCalculator.cc	conformation / Residue.hh
pose_metric_calculators / PiPiCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / PiPiCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / PiPiCalculator.hh	types.hh
pose_manipulation.cc	id / AtomID_Map.hh
pose_manipulation.cc	chemical / ChemicalManager.hh
pose_manipulation.cc	conformation / Conformation.hh
pose_manipulation.cc	scoring / Energies.hh
pose_manipulation.cc	kinematics / FoldTree.hh
pose_manipulation.cc	kinematics / MoveMap.hh
pose_manipulation.cc	pose / Pose.hh
pose_manipulation.cc	conformation / Residue.hh
pose_manipulation.cc	chemical / ResidueType.hh
pose_manipulation.cc	chemical / ResidueTypeSet.hh
pose_manipulation.cc	scoring / rms_util.hh
pose_manipulation.cc	scoring / ScoreFunction.hh
pose_manipulation.cc	types.hh
pose_manipulation.cc	pose / util.hh
pose_manipulation.cc	kinematics / util.hh
pose_manipulation.cc	pose / util.tmpl.hh
pose_manipulation.cc	chemical / VariantType.hh
pose_manipulation.hh	pose / Pose.fwd.hh
pose_manipulation.hh	chemical / ResidueType.fwd.hh
pose_manipulation.hh	types.hh
task_operations / PreventChainFromRepackingOperation.cc	conformation / Conformation.hh
task_operations / PreventChainFromRepackingOperation.cc	pose / Pose.hh
task_operations / PreventChainFromRepackingOperation.cc	pack / task / operation / TaskOperations.hh
task_operations / PreventChainFromRepackingOperation.cc	types.hh
task_operations / PreventChainFromRepackingOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / PreventChainFromRepackingOperation.hh	pose / Pose.fwd.hh
task_operations / PreventChainFromRepackingOperation.hh	types.hh
task_operations / PreventChainFromRepackingOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / PreventResiduesFromRepackingOperation.cc	kinematics / Jump.hh
task_operations / PreventResiduesFromRepackingOperation.cc	conformation / Residue.hh
task_operations / PreventResiduesFromRepackingOperation.cc	pack / task / operation / TaskOperations.hh
task_operations / PreventResiduesFromRepackingOperation.cc	types.hh
task_operations / PreventResiduesFromRepackingOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / PreventResiduesFromRepackingOperation.hh	pose / Pose.fwd.hh
task_operations / PreventResiduesFromRepackingOperation.hh	types.hh
task_operations / PreventResiduesFromRepackingOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / ProteinCoreResFilter.cc	pose / Pose.hh
task_operations / ProteinCoreResFilter.cc	types.hh
task_operations / ProteinCoreResFilter.hh	pose / Pose.fwd.hh
task_operations / ProteinCoreResFilter.hh	pack / task / operation / ResFilter.hh
task_operations / ProteinCoreResFilter.hh	types.hh
task_operations / ProteinCoreResFilterCreator.hh	pack / task / operation / ResFilterCreator.hh
task_operations / ProteinInterfaceDesignOperation.cc	conformation / Conformation.hh
task_operations / ProteinInterfaceDesignOperation.cc	pack / task / operation / NoRepackDisulfides.hh
task_operations / ProteinInterfaceDesignOperation.cc	pack / task / operation / OperateOnCertainResidues.hh
task_operations / ProteinInterfaceDesignOperation.cc	pose / Pose.hh
task_operations / ProteinInterfaceDesignOperation.cc	pack / task / operation / ResLvlTaskOperations.hh
task_operations / ProteinInterfaceDesignOperation.cc	pack / task / operation / TaskOperations.hh
task_operations / ProteinInterfaceDesignOperation.cc	types.hh
task_operations / ProteinInterfaceDesignOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / ProteinInterfaceDesignOperation.hh	pose / Pose.fwd.hh
task_operations / ProteinInterfaceDesignOperation.hh	types.hh
task_operations / ProteinInterfaceDesignOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
PyReturnValuePolicyTest.hh	pose / Pose.hh
PyReturnValuePolicyTest.hh	scoring / ScoreFunction.hh
PyReturnValuePolicyTest.hh	scoring / ScoreFunctionFactory.hh
PyReturnValuePolicyTest.hh	types.hh
task_operations / ReadResfileFromDB.cc	pack / task / ResfileReader.hh
task_operations / ReadResfileFromDB.cc	pack / task / operation / TaskOperation.hh
task_operations / ReadResfileFromDB.hh	pack / task / PackerTask.fwd.hh
task_operations / ReadResfileFromDB.hh	pose / Pose.fwd.hh
task_operations / ReadResfileFromDB.hh	pack / task / operation / TaskOperation.hh
task_operations / ReadResfileFromDBCreator.hh	pack / task / operation / TaskOperationCreator.hh
pose_metric_calculators / ResidueDecompositionByChainCalculator.cc	conformation / Conformation.hh
pose_metric_calculators / ResidueDecompositionByChainCalculator.cc	pose / PDBInfo.hh
pose_metric_calculators / ResidueDecompositionByChainCalculator.cc	pose / Pose.hh
pose_metric_calculators / ResidueDecompositionByChainCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / ResidueDecompositionByChainCalculator.hh	types.hh
pose_metric_calculators / ResidueDecompositionCalculator.cc	pose / Pose.hh
pose_metric_calculators / ResidueDecompositionCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / ResidueDecompositionCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / ResidueDecompositionCalculator.hh	types.hh
task_operations / RestrictByCalculatorsOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictByCalculatorsOperation.cc	pose / Pose.hh
task_operations / RestrictByCalculatorsOperation.cc	types.hh
task_operations / RestrictByCalculatorsOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictByCalculatorsOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictByCalculatorsOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictChainToRepackingOperation.cc	conformation / Conformation.hh
task_operations / RestrictChainToRepackingOperation.cc	pose / Pose.hh
task_operations / RestrictChainToRepackingOperation.cc	pack / task / operation / TaskOperations.hh
task_operations / RestrictChainToRepackingOperation.cc	types.hh
task_operations / RestrictChainToRepackingOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictChainToRepackingOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictChainToRepackingOperation.hh	types.hh
task_operations / RestrictChainToRepackingOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	conformation / Conformation.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	import_pose / import_pose.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	pack / task / operation / OperateOnCertainResidues.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	pose / Pose.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	pack / task / operation / ResLvlTaskOperations.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	pose / selection.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	pack / task / TaskFactory.hh
task_operations / RestrictIdentitiesAtAlignedPositions.cc	types.hh
task_operations / RestrictIdentitiesAtAlignedPositions.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictIdentitiesAtAlignedPositions.hh	pose / Pose.fwd.hh
task_operations / RestrictIdentitiesAtAlignedPositions.hh	types.hh
task_operations / RestrictIdentitiesAtAlignedPositionsCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictInterGroupVectorOperation.cc	pack / task / operation / util / interface_vector_calculate.hh
task_operations / RestrictInterGroupVectorOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictInterGroupVectorOperation.cc	pose / Pose.hh
task_operations / RestrictInterGroupVectorOperation.cc	pose / selection.hh
task_operations / RestrictInterGroupVectorOperation.cc	types.hh
task_operations / RestrictInterGroupVectorOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictInterGroupVectorOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictInterGroupVectorOperation.hh	types.hh
task_operations / RestrictInterGroupVectorOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictNativeResiduesOperation.cc	conformation / Conformation.hh
task_operations / RestrictNativeResiduesOperation.cc	import_pose / import_pose.hh
task_operations / RestrictNativeResiduesOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictNativeResiduesOperation.cc	pose / PDBInfo.hh
task_operations / RestrictNativeResiduesOperation.cc	pose / Pose.hh
task_operations / RestrictNativeResiduesOperation.cc	conformation / symmetry / SymmetryInfo.hh
task_operations / RestrictNativeResiduesOperation.cc	pose / symmetry / util.hh
task_operations / RestrictNativeResiduesOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictNativeResiduesOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictNativeResiduesOperation.hh	types.hh
task_operations / RestrictNativeResiduesOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictNonSurfaceToRepackingOperation.cc	conformation / find_neighbors.hh
task_operations / RestrictNonSurfaceToRepackingOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictNonSurfaceToRepackingOperation.cc	conformation / PointGraph.hh
task_operations / RestrictNonSurfaceToRepackingOperation.cc	conformation / PointGraphData.hh
task_operations / RestrictNonSurfaceToRepackingOperation.cc	pose / Pose.hh
task_operations / RestrictNonSurfaceToRepackingOperation.cc	types.hh
task_operations / RestrictNonSurfaceToRepackingOperation.cc	graph / UpperEdgeGraph.hh
task_operations / RestrictNonSurfaceToRepackingOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictNonSurfaceToRepackingOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictNonSurfaceToRepackingOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictNonSurfaceToRepackingOperation.hh	types.hh
task_operations / RestrictNonSurfaceToRepackingOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictOperationsBase.cc	pose / Pose.hh
task_operations / RestrictOperationsBase.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictOperationsBase.hh	pose / Pose.fwd.hh
task_operations / RestrictOperationsBase.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictResiduesToRepackingOperation.cc	kinematics / Jump.hh
task_operations / RestrictResiduesToRepackingOperation.cc	conformation / Residue.hh
task_operations / RestrictResiduesToRepackingOperation.cc	pack / task / operation / TaskOperations.hh
task_operations / RestrictResiduesToRepackingOperation.cc	id / types.hh
task_operations / RestrictResiduesToRepackingOperation.cc	types.hh
task_operations / RestrictResiduesToRepackingOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictResiduesToRepackingOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictResiduesToRepackingOperation.hh	types.hh
task_operations / RestrictResiduesToRepackingOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToAlignedSegments.cc	conformation / Conformation.hh
task_operations / RestrictToAlignedSegments.cc	import_pose / import_pose.hh
task_operations / RestrictToAlignedSegments.cc	pack / task / operation / OperateOnCertainResidues.hh
task_operations / RestrictToAlignedSegments.cc	pose / Pose.hh
task_operations / RestrictToAlignedSegments.cc	pack / task / operation / ResLvlTaskOperations.hh
task_operations / RestrictToAlignedSegments.cc	pose / selection.hh
task_operations / RestrictToAlignedSegments.cc	pack / task / TaskFactory.hh
task_operations / RestrictToAlignedSegments.cc	types.hh
task_operations / RestrictToAlignedSegments.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictToAlignedSegments.hh	pose / Pose.fwd.hh
task_operations / RestrictToAlignedSegments.hh	types.hh
task_operations / RestrictToAlignedSegmentsCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToCDRH3Loop.cc	pose / PDBInfo.hh
task_operations / RestrictToCDRH3Loop.cc	pose / Pose.hh
task_operations / RestrictToCDRH3Loop.cc	pack / task / operation / TaskOperation.hh
task_operations / RestrictToCDRH3Loop.cc	pack / task / operation / TaskOperations.hh
task_operations / RestrictToCDRH3Loop.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictToCDRH3Loop.hh	pose / Pose.fwd.hh
task_operations / RestrictToCDRH3Loop.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictToCDRH3LoopCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToInterface.cc	conformation / Conformation.hh
task_operations / RestrictToInterface.cc	kinematics / FoldTree.hh
task_operations / RestrictToInterface.cc	pack / task / PackerTask.hh
task_operations / RestrictToInterface.cc	pose / Pose.hh
task_operations / RestrictToInterface.cc	conformation / Residue.hh
task_operations / RestrictToInterface.cc	conformation / symmetry / SymmetricConformation.hh
task_operations / RestrictToInterface.cc	conformation / symmetry / SymmetryInfo.hh
task_operations / RestrictToInterface.cc	pose / symmetry / util.hh
task_operations / RestrictToInterface.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictToInterface.hh	pose / Pose.fwd.hh
task_operations / RestrictToInterface.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictToInterface.hh	types.hh
task_operations / RestrictToInterfaceCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToInterfaceOperation.cc	pose / metrics / CalculatorFactory.hh
task_operations / RestrictToInterfaceOperation.cc	pose / metrics / simple_calculators / InterfaceNeighborDefinitionCalculator.hh
task_operations / RestrictToInterfaceOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictToInterfaceOperation.cc	pose / Pose.hh
task_operations / RestrictToInterfaceOperation.cc	types.hh
task_operations / RestrictToInterfaceOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictToInterfaceOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictToInterfaceOperation.hh	types.hh
task_operations / RestrictToInterfaceOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToInterfaceVectorOperation.cc	pack / task / operation / util / interface_vector_calculate.hh
task_operations / RestrictToInterfaceVectorOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictToInterfaceVectorOperation.cc	pose / Pose.hh
task_operations / RestrictToInterfaceVectorOperation.cc	types.hh
task_operations / RestrictToInterfaceVectorOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictToInterfaceVectorOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToLoopsAndNeighbors.cc	pose / PDBInfo.hh
task_operations / RestrictToLoopsAndNeighbors.cc	pose / Pose.hh
task_operations / RestrictToLoopsAndNeighbors.cc	pack / task / operation / TaskOperations.hh
task_operations / RestrictToLoopsAndNeighbors.cc	pose / symmetry / util.hh
task_operations / RestrictToLoopsAndNeighbors.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictToLoopsAndNeighbors.hh	pose / Pose.fwd.hh
task_operations / RestrictToLoopsAndNeighbors.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictToLoopsAndNeighbors.hh	types.hh
task_operations / RestrictToLoopsAndNeighborsCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToNeighborhoodOperation.cc	pose / metrics / CalculatorFactory.hh
task_operations / RestrictToNeighborhoodOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictToNeighborhoodOperation.cc	pose / Pose.hh
task_operations / RestrictToNeighborhoodOperation.cc	types.hh
task_operations / RestrictToNeighborhoodOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictToNeighborhoodOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictToNeighborhoodOperation.hh	types.hh
task_operations / RestrictToNeighborhoodOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
task_operations / RestrictToTerminiOperation.cc	conformation / Conformation.hh
task_operations / RestrictToTerminiOperation.cc	pack / task / operation / OperateOnCertainResidues.hh
task_operations / RestrictToTerminiOperation.cc	pack / task / PackerTask.hh
task_operations / RestrictToTerminiOperation.cc	pose / Pose.hh
task_operations / RestrictToTerminiOperation.cc	pack / task / operation / ResLvlTaskOperations.hh
task_operations / RestrictToTerminiOperation.cc	types.hh
task_operations / RestrictToTerminiOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / RestrictToTerminiOperation.hh	pose / Pose.fwd.hh
task_operations / RestrictToTerminiOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / RestrictToTerminiOperation.hh	types.hh
task_operations / RestrictToTerminiOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	scoring / Energies.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	graph / Graph.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	pack / task / PackerTask.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	pose / Pose.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	conformation / Residue.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	pack / dunbrack / RotamerLibrary.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	pack / rotamer_set / RotamerSet.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	pack / rotamer_set / RotamerSet_.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.cc	scoring / TenANeighborGraph.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	pack / rotamer_set / BumpSelector.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	graph / Graph.fwd.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	pack / task / PackerTask.fwd.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	pose / Pose.fwd.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	conformation / Residue.fwd.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	pack / rotamer_set / RotamerSet.fwd.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	pack / rotamer_set / RotamerSetOperation.hh
rotamer_set_operations / RigidBodyMoveRotSetOps.hh	scoring / ScoreFunction.fwd.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	graph / Graph.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	optimization / MinimizerOptions.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	kinematics / MoveMap.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	pack / task / PackerTask.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	pose / Pose.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	pack / rotamer_set / RotamerSet.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	pack / rotamer_set / RotamerSetFactory.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	pack / rotamer_set / RotamerSets.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	pack / task / TaskFactory.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	pack / task / operation / TaskOperations.hh
pose_metric_calculators / RotamerBoltzCalculator.cc	types.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	pack / task / PackerTask.fwd.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	conformation / Residue.fwd.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	pack / rotamer_set / RotamerSet.fwd.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	pack / rotamer_set / RotamerSets.fwd.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	scoring / ScoreFunction.fwd.hh
pose_metric_calculators / RotamerBoltzCalculator.hh	types.hh
pose_metric_calculators / RotamerRecovery.cc	scoring / dssp / Dssp.hh
pose_metric_calculators / RotamerRecovery.cc	pack / dunbrack / DunbrackRotamer.fwd.hh
pose_metric_calculators / RotamerRecovery.cc	pose / Pose.hh
pose_metric_calculators / RotamerRecovery.cc	conformation / Residue.hh
pose_metric_calculators / RotamerRecovery.cc	chemical / ResidueTypeSet.fwd.hh
pose_metric_calculators / RotamerRecovery.cc	pack / dunbrack / RotamerLibrary.hh
pose_metric_calculators / RotamerRecovery.cc	types.hh
pose_metric_calculators / RotamerRecovery.hh	pack / dunbrack / DunbrackRotamer.fwd.hh
pose_metric_calculators / RotamerRecovery.hh	pose / Pose.fwd.hh
pose_metric_calculators / SaltBridgeCalculator.cc	pose / Pose.hh
pose_metric_calculators / SaltBridgeCalculator.cc	conformation / Residue.hh
pose_metric_calculators / SaltBridgeCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / SaltBridgeCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / SaltBridgeCalculator.hh	types.hh
task_operations / SelectBySASAOperation.cc	id / AtomID_Map.hh
task_operations / SelectBySASAOperation.cc	pack / task / PackerTask.hh
task_operations / SelectBySASAOperation.cc	pose / Pose.hh
task_operations / SelectBySASAOperation.cc	conformation / Residue.hh
task_operations / SelectBySASAOperation.cc	scoring / sasa.hh
task_operations / SelectBySASAOperation.cc	conformation / symmetry / SymmetryInfo.hh
task_operations / SelectBySASAOperation.cc	types.hh
task_operations / SelectBySASAOperation.cc	pose / util.hh
task_operations / SelectBySASAOperation.cc	pose / symmetry / util.hh
task_operations / SelectBySASAOperation.hh	pose / Pose.fwd.hh
task_operations / SelectBySASAOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / SelectBySASAOperation.hh	types.hh
task_operations / SelectBySASAOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
SelectResiduesByLayer.cc	id / AtomID_Map.hh
SelectResiduesByLayer.cc	chemical / AtomType.hh
SelectResiduesByLayer.cc	scoring / dssp / Dssp.hh
SelectResiduesByLayer.cc	pose / Pose.hh
SelectResiduesByLayer.cc	scoring / sasa.hh
SelectResiduesByLayer.cc	pose / util.hh
SelectResiduesByLayer.cc	pose / util.tmpl.hh
SelectResiduesByLayer.hh	chemical / AA.hh
SelectResiduesByLayer.hh	pose / Pose.fwd.hh
SelectResiduesByLayer.hh	types.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	chemical / AtomType.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	pose / metrics / CalculatorFactory.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	conformation / Conformation.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / hbonds / constants.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / Energies.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / methods / EnergyMethodOptions.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	kinematics / FoldTree.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / hbonds / HBEvalTuple.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / hbonds / hbonds_geom.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	kinematics / Jump.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	pose / Pose.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	conformation / Residue.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	conformation / ResidueFactory.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	chemical / ResidueTypeSet.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.cc	scoring / ScoreFunction.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.hh	id / AtomID_Map.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.hh	scoring / hbonds / HBondDatabase.fwd.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.hh	conformation / Residue.fwd.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.hh	scoring / ScoreFunction.hh
pose_metric_calculators / SemiExplicitWaterUnsatisfiedPolarsCalculator.hh	types.hh
task_operations / SeqprofConsensusOperation.cc	chemical / AA.hh
task_operations / SeqprofConsensusOperation.cc	pack / task / PackerTask.hh
task_operations / SeqprofConsensusOperation.cc	pose / Pose.hh
task_operations / SeqprofConsensusOperation.cc	io / ddg / PositionDdGInfo.hh
task_operations / SeqprofConsensusOperation.cc	chemical / ResidueType.hh
task_operations / SeqprofConsensusOperation.cc	sequence / SequenceProfile.hh
task_operations / SeqprofConsensusOperation.cc	conformation / symmetry / SymmetricConformation.hh
task_operations / SeqprofConsensusOperation.cc	conformation / symmetry / SymmetryInfo.hh
task_operations / SeqprofConsensusOperation.cc	pose / symmetry / util.hh
task_operations / SeqprofConsensusOperation.hh	chemical / AA.hh
task_operations / SeqprofConsensusOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / SeqprofConsensusOperation.hh	io / ddg / PositionDdGInfo.fwd.hh
task_operations / SeqprofConsensusOperation.hh	sequence / SequenceProfile.fwd.hh
task_operations / SeqprofConsensusOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / SeqprofConsensusOperation.hh	types.hh
task_operations / SeqprofConsensusOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
pose_metric_calculators / SequenceComparison.cc	conformation / find_neighbors.hh
pose_metric_calculators / SequenceComparison.cc	pack / task / PackerTask.hh
pose_metric_calculators / SequenceComparison.cc	conformation / PointGraph.hh
pose_metric_calculators / SequenceComparison.cc	conformation / PointGraphData.hh
pose_metric_calculators / SequenceComparison.cc	pose / Pose.hh
pose_metric_calculators / SequenceComparison.cc	conformation / Residue.hh
pose_metric_calculators / SequenceComparison.cc	pack / task / TaskFactory.hh
pose_metric_calculators / SequenceComparison.cc	pack / task / operation / TaskOperations.hh
pose_metric_calculators / SequenceComparison.cc	graph / UpperEdgeGraph.hh
pose_metric_calculators / SequenceComparison.hh	pose / Pose.fwd.hh
pose_metric_calculators / SequenceComparison.hh	pack / task / TaskFactory.fwd.hh
pose_metric_calculators / SequenceComparison.hh	types.hh
task_operations / SetIGTypeOperation.cc	pack / task / PackerTask.hh
task_operations / SetIGTypeOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / SetIGTypeOperation.hh	pose / Pose.fwd.hh
task_operations / SetIGTypeOperation.hh	pack / task / operation / TaskOperation.hh
task_operations / SetIGTypeOperation.hh	types.hh
task_operations / SetIGTypeOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
rotamer_set_operations / SpecialRotamerRotSetOps.cc	conformation / Residue.hh
rotamer_set_operations / SpecialRotamerRotSetOps.cc	pack / rotamer_set / RotamerSet.hh
rotamer_set_operations / SpecialRotamerRotSetOps.cc	pose / util.hh
rotamer_set_operations / SpecialRotamerRotSetOps.cc	chemical / VariantType.hh
rotamer_set_operations / SpecialRotamerRotSetOps.hh	graph / Graph.fwd.hh
rotamer_set_operations / SpecialRotamerRotSetOps.hh	pack / task / PackerTask.fwd.hh
rotamer_set_operations / SpecialRotamerRotSetOps.hh	pose / Pose.fwd.hh
rotamer_set_operations / SpecialRotamerRotSetOps.hh	conformation / Residue.fwd.hh
rotamer_set_operations / SpecialRotamerRotSetOps.hh	pack / rotamer_set / RotamerSet.fwd.hh
rotamer_set_operations / SpecialRotamerRotSetOps.hh	pack / rotamer_set / RotamerSetOperation.hh
rotamer_set_operations / SpecialRotamerRotSetOps.hh	scoring / ScoreFunction.fwd.hh
superimpose.cc	id / AtomID.hh
superimpose.cc	id / NamedAtomID.hh
superimpose.cc	pose / Pose.hh
superimpose.cc	chemical / ResidueType.hh
superimpose.cc	types.hh
superimpose.hh	pose / Pose.fwd.hh
superimpose.hh	types.hh
pose_metric_calculators / SurfaceCalculator.cc	pose / Pose.hh
pose_metric_calculators / SurfaceCalculator.cc	chemical / ResidueType.hh
pose_metric_calculators / SurfaceCalculator.cc	pack / interaction_graph / SurfacePotential.hh
pose_metric_calculators / SurfaceCalculator.hh	pose / Pose.fwd.hh
pose_metric_calculators / SurfaceCalculator.hh	pose / metrics / PoseMetricCalculatorBase.hh
pose_metric_calculators / SurfaceCalculator.hh	types.hh
task_operations / ThreadSequenceOperation.cc	pose / Pose.hh
task_operations / ThreadSequenceOperation.cc	pack / task / operation / TaskOperations.hh
task_operations / ThreadSequenceOperation.cc	types.hh
task_operations / ThreadSequenceOperation.hh	pack / task / PackerTask.fwd.hh
task_operations / ThreadSequenceOperation.hh	pose / Pose.fwd.hh
task_operations / ThreadSequenceOperation.hh	types.hh
task_operations / ThreadSequenceOperationCreator.hh	pack / task / operation / TaskOperationCreator.hh
match_enzdes_util / util_functions.cc	scoring / constraints / AmbiguousConstraint.hh
match_enzdes_util / util_functions.cc	kinematics / tree / Atom.hh
match_enzdes_util / util_functions.cc	id / AtomID.hh
match_enzdes_util / util_functions.cc	kinematics / AtomTree.hh
match_enzdes_util / util_functions.cc	scoring / constraints / BackboneStubConstraint.hh
match_enzdes_util / util_functions.cc	scoring / constraints / BoundConstraint.hh
match_enzdes_util / util_functions.cc	scoring / constraints / CoordinateConstraint.hh
match_enzdes_util / util_functions.cc	scoring / constraints / MultiConstraint.hh
match_enzdes_util / util_functions.cc	pose / Pose.hh
match_enzdes_util / util_functions.cc	conformation / Residue.hh
match_enzdes_util / util_functions.cc	types.hh
match_enzdes_util / util_functions.hh	scoring / constraints / AmbiguousConstraint.fwd.hh
match_enzdes_util / util_functions.hh	id / AtomID.fwd.hh
match_enzdes_util / util_functions.hh	scoring / constraints / Func.fwd.hh
match_enzdes_util / util_functions.hh	pose / Pose.fwd.hh
match_enzdes_util / util_functions.hh	conformation / Residue.fwd.hh
match_enzdes_util / util_functions.hh	types.hh