abinitio → core Relation

File in src/protocols/abinitio	Includes file in src/core
AbrelaxApplication.cc	pose / annotated_sequence.hh
AbrelaxApplication.cc	fragment / BBTorsionSRFD.hh
AbrelaxApplication.cc	scoring / constraints / BoundConstraint.hh
AbrelaxApplication.cc	pose / datacache / CacheableDataType.hh
AbrelaxApplication.cc	pose / metrics / CalculatorFactory.hh
AbrelaxApplication.cc	chemical / ChemicalManager.hh
AbrelaxApplication.cc	conformation / Conformation.hh
AbrelaxApplication.cc	scoring / constraints / ConstraintFactory.hh
AbrelaxApplication.cc	scoring / constraints / ConstraintIO.hh
AbrelaxApplication.cc	scoring / constraints / ConstraintSet.hh
AbrelaxApplication.cc	energy_methods / ContactOrderEnergy.hh
AbrelaxApplication.cc	io / raw_data / DisulfideFile.hh
AbrelaxApplication.cc	scoring / Energies.hh
AbrelaxApplication.cc	pose / extra_pose_info_util.hh
AbrelaxApplication.cc	fragment / FragData.hh
AbrelaxApplication.cc	fragment / FragmentIO.hh
AbrelaxApplication.cc	fragment / Frame.hh
AbrelaxApplication.cc	fragment / FrameIterator.hh
AbrelaxApplication.cc	fragment / FrameIteratorWorker_.hh
AbrelaxApplication.cc	fragment / FrameList.hh
AbrelaxApplication.cc	scoring / func / Func.hh
AbrelaxApplication.cc	scoring / func / FuncFactory.hh
AbrelaxApplication.cc	scoring / func / HarmonicFunc.hh
AbrelaxApplication.cc	import_pose / import_pose.hh
AbrelaxApplication.cc	scoring / MembraneTopology.hh
AbrelaxApplication.cc	kinematics / MoveMap.hh
AbrelaxApplication.cc	scoring / dssp / PairingsList.hh
AbrelaxApplication.cc	pose / Pose.hh
AbrelaxApplication.cc	scoring / ScoreFunction.fwd.hh
AbrelaxApplication.cc	scoring / ScoreFunctionFactory.hh
AbrelaxApplication.cc	scoring / ScoreType.hh
AbrelaxApplication.cc	fragment / SecondaryStructure.hh
AbrelaxApplication.cc	sequence / Sequence.hh
AbrelaxApplication.cc	id / SequenceMapping.hh
AbrelaxApplication.cc	io / silent / silent.fwd.hh
AbrelaxApplication.cc	io / silent / SilentFileData.hh
AbrelaxApplication.cc	io / silent / SilentFileOptions.hh
AbrelaxApplication.cc	io / silent / SilentStructFactory.hh
AbrelaxApplication.cc	scoring / SS_Killhairpins_Info.hh
AbrelaxApplication.cc	scoring / dssp / StrandPairing.hh
AbrelaxApplication.cc	util / SwitchResidueTypeSet.hh
AbrelaxApplication.cc	types.hh
AbrelaxApplication.cc	sequence / util.hh
AbrelaxApplication.cc	scoring / constraints / util.hh
AbrelaxApplication.cc	fragment / util.hh
AbrelaxApplication.cc	pose / util.hh
AbrelaxApplication.cc	kinematics / util.hh
AbrelaxApplication.hh	scoring / constraints / ConstraintSet.fwd.hh
AbrelaxApplication.hh	fragment / FragSet.fwd.hh
AbrelaxApplication.hh	pose / Pose.fwd.hh
AbrelaxApplication.hh	scoring / ScoreFunction.fwd.hh
AbrelaxApplication.hh	fragment / SecondaryStructure.fwd.hh
AbrelaxApplication.hh	io / silent / SilentFileData.fwd.hh
AbrelaxApplication.hh	io / silent / SilentFileOptions.fwd.hh
AbrelaxApplication.hh	types.hh
AbrelaxMover.cc	scoring / constraints / ConstraintSet.hh
AbrelaxMover.cc	kinematics / FoldTree.hh
AbrelaxMover.cc	kinematics / MoveMap.hh
AbrelaxMover.cc	pose / Pose.hh
AbrelaxMover.cc	scoring / ScoreFunction.hh
AbrelaxMover.cc	scoring / ScoreFunctionFactory.hh
AbrelaxMover.cc	kinematics / ShortestPathInFoldTree.hh
AbrelaxMover.hh	pose / Pose.fwd.hh
AbrelaxMover.hh	types.hh
abscript / AbscriptLoopCloserCM.cc	environment / DofPassport.hh
abscript / AbscriptLoopCloserCM.cc	fragment / FragmentIO.hh
abscript / AbscriptLoopCloserCM.cc	fragment / FragSet.hh
abscript / AbscriptLoopCloserCM.cc	kinematics / MoveMap.hh
abscript / AbscriptLoopCloserCM.cc	scoring / ScoreFunctionFactory.hh
abscript / AbscriptLoopCloserCM.cc	select / residue_selector / TrueResidueSelector.hh
abscript / AbscriptLoopCloserCM.cc	select / residue_selector / util.hh
abscript / AbscriptLoopCloserCM.hh	conformation / Conformation.fwd.hh
abscript / AbscriptLoopCloserCM.hh	kinematics / FoldTree.fwd.hh
abscript / AbscriptLoopCloserCM.hh	fragment / FragSet.hh
abscript / AbscriptLoopCloserCM.hh	kinematics / MoveMap.hh
abscript / AbscriptLoopCloserCM.hh	select / residue_selector / ResidueSelector.hh
abscript / AbscriptLoopCloserCM.hh	scoring / ScoreFunction.hh
abscript / AbscriptMover.cc	scoring / constraints / ConstraintSet.hh
abscript / AbscriptMover.cc	scoring / Energies.hh
abscript / AbscriptMover.cc	fragment / FragmentIO.hh
abscript / AbscriptMover.cc	fragment / FragSet.hh
abscript / AbscriptMover.cc	kinematics / MoveMap.hh
abscript / AbscriptMover.cc	pose / Pose.hh
abscript / AbscriptMover.cc	select / residue_selector / ResidueSelector.fwd.hh
abscript / AbscriptMover.cc	scoring / ScoreFunction.hh
abscript / AbscriptMover.cc	scoring / ScoreFunctionFactory.hh
abscript / AbscriptMover.cc	scoring / ScoreType.hh
abscript / AbscriptMover.cc	fragment / SecondaryStructure.hh
abscript / AbscriptMover.cc	kinematics / ShortestPathInFoldTree.hh
abscript / AbscriptMover.hh	pose / Pose.hh
abscript / AbscriptMover.hh	select / residue_selector / ResidueSelector.fwd.hh
abscript / AbscriptMover.hh	scoring / ScoreFunction.hh
abscript / AbscriptStageMover.cc	scoring / constraints / ConstraintSet.hh
abscript / AbscriptStageMover.cc	scoring / Energies.hh
abscript / AbscriptStageMover.cc	scoring / methods / EnergyMethodOptions.hh
abscript / AbscriptStageMover.cc	pose / Pose.hh
abscript / AbscriptStageMover.cc	scoring / ScoreFunction.hh
abscript / AbscriptStageMover.hh	scoring / ScoreFunction.hh
AllResiduesChanged.hh	fragment / FragSet.fwd.hh
AllResiduesChanged.hh	kinematics / MoveMap.hh
AllResiduesChanged.hh	pose / Pose.hh
AllResiduesChanged.hh	conformation / Residue.hh
BrokerMain.cc	scoring / constraints / BoundConstraint.hh
BrokerMain.cc	scoring / constraints / ConstraintIO.hh
BrokerMain.cc	scoring / func / FuncFactory.hh
BrokerMain.cc	io / silent / SilentStruct.hh
ClassicAbinitio.cc	scoring / constraints / ConstraintSet.fwd.hh
ClassicAbinitio.cc	scoring / constraints / ConstraintSet.hh
ClassicAbinitio.cc	kinematics / MoveMap.hh
ClassicAbinitio.cc	pack / task / PackerTask.hh
ClassicAbinitio.cc	pose / Pose.hh
ClassicAbinitio.cc	scoring / rms_util.hh
ClassicAbinitio.cc	scoring / ScoreFunction.fwd.hh
ClassicAbinitio.cc	scoring / ScoreFunctionFactory.hh
ClassicAbinitio.cc	scoring / ScoreType.hh
ClassicAbinitio.cc	pack / task / TaskFactory.hh
ClassicAbinitio.cc	pack / task / operation / TaskOperations.hh
ClassicAbinitio.cc	types.hh
ClassicAbinitio.hh	fragment / FragSet.fwd.hh
ClassicAbinitio.hh	kinematics / MoveMap.fwd.hh
ClassicAbinitio.hh	pose / Pose.fwd.hh
ClassicAbinitio.hh	scoring / ScoreFunction.fwd.hh
ClassicAbinitio.hh	scoring / ScoreType.hh
ClassicAbinitio.hh	types.hh
ConstraintFragmentSampler.cc	scoring / constraints / ConstraintSet.hh
ConstraintFragmentSampler.cc	scoring / Energies.hh
ConstraintFragmentSampler.cc	scoring / methods / EnergyMethodOptions.hh
ConstraintFragmentSampler.cc	pose / Pose.hh
ConstraintFragmentSampler.cc	scoring / ScoreFunction.hh
ConstraintFragmentSampler.cc	scoring / ScoreType.hh
ConstraintFragmentSampler.cc	kinematics / ShortestPathInFoldTree.hh
ConstraintFragmentSampler.cc	types.hh
ConstraintFragmentSampler.hh	pose / Pose.fwd.hh
ConstraintFragmentSampler.hh	types.hh
abscript / ConstraintPreparer.cc	scoring / constraints / ConstraintIO.hh
abscript / ConstraintPreparer.cc	environment / DofPassport.hh
abscript / ConstraintPreparer.cc	id / Exceptions.hh
abscript / ConstraintPreparer.cc	kinematics / ShortestPathInFoldTree.hh
abscript / ConstraintPreparer.cc	scoring / constraints / util.hh
abscript / ConstraintPreparer.hh	scoring / constraints / ConstraintSet.hh
abscript / ConstraintPreparer.hh	pose / Pose.hh
DomainAssembly.cc	chemical / ChemicalManager.fwd.hh
DomainAssembly.cc	fragment / FragmentIO.hh
DomainAssembly.cc	fragment / FragSet.hh
DomainAssembly.cc	kinematics / MoveMap.hh
DomainAssembly.cc	pack / pack_rotamers.hh
DomainAssembly.cc	pack / task / PackerTask.hh
DomainAssembly.cc	pack / task / ResfileReader.hh
DomainAssembly.cc	conformation / Residue.hh
DomainAssembly.cc	scoring / ScoreFunctionFactory.hh
DomainAssembly.cc	pose / selection.hh
DomainAssembly.cc	pack / task / TaskFactory.hh
DomainAssembly.hh	fragment / FragSet.fwd.hh
DomainAssembly.hh	pose / Pose.fwd.hh
DomainAssembly.hh	types.hh
DoubleLayerKinematicAbinitio.cc	kinematics / MoveMap.hh
DoubleLayerKinematicAbinitio.cc	pose / Pose.hh
DoubleLayerKinematicAbinitio.cc	kinematics / util.hh
DoubleLayerKinematicAbinitio.hh	pose / Pose.fwd.hh
DoubleLayerKinematicAbinitio.hh	types.hh
FoldConstraints.cc	scoring / constraints / ConstraintSet.hh
FoldConstraints.cc	scoring / Energies.hh
FoldConstraints.cc	fragment / FragSet.hh
FoldConstraints.cc	kinematics / MoveMap.hh
FoldConstraints.cc	pose / Pose.hh
FoldConstraints.cc	scoring / ScoreType.hh
FoldConstraints.cc	types.hh
FoldConstraints.hh	kinematics / FoldTree.fwd.hh
FoldConstraints.hh	kinematics / MoveMap.fwd.hh
FoldConstraints.hh	pose / Pose.fwd.hh
FoldConstraints.hh	scoring / ScoreFunction.fwd.hh
FoldConstraints.hh	scoring / ScoreType.hh
FoldConstraints.hh	kinematics / ShortestPathInFoldTree.fwd.hh
FoldConstraints.hh	types.hh
abscript / FragmentCM.cc	pose / datacache / CacheableDataType.hh
abscript / FragmentCM.cc	environment / DofPassport.hh
abscript / FragmentCM.cc	fragment / FragmentIO.hh
abscript / FragmentCM.cc	fragment / FragSet.hh
abscript / FragmentCM.cc	environment / LocalPosition.hh
abscript / FragmentCM.cc	kinematics / MoveMap.hh
abscript / FragmentCM.cc	pose / Pose.hh
abscript / FragmentCM.cc	select / residue_selector / ResidueSelector.hh
abscript / FragmentCM.cc	select / residue_selector / util.hh
abscript / FragmentCM.hh	select / residue_selector / ResidueSelector.hh
abscript / FragmentJumpCM.cc	pose / datacache / CacheableDataType.hh
abscript / FragmentJumpCM.cc	environment / DofPassport.hh
abscript / FragmentJumpCM.cc	fragment / FragSet.hh
abscript / FragmentJumpCM.cc	fragment / Frame.hh
abscript / FragmentJumpCM.cc	fragment / FrameList.hh
abscript / FragmentJumpCM.cc	environment / LocalPosition.hh
abscript / FragmentJumpCM.cc	kinematics / MoveMap.hh
abscript / FragmentJumpCM.cc	fragment / OrderedFragSet.hh
abscript / FragmentJumpCM.cc	scoring / dssp / PairingsList.hh
abscript / FragmentJumpCM.cc	pose / Pose.hh
abscript / FragmentJumpCM.cc	select / residue_selector / ResidueSelector.hh
abscript / FragmentJumpCM.cc	fragment / SecondaryStructure.hh
abscript / FragmentJumpCM.cc	select / residue_selector / util.hh
FragmentSampler.cc	pose / datacache / CacheableDataType.hh
FragmentSampler.cc	scoring / constraints / ConstraintSet.hh
FragmentSampler.cc	kinematics / Jump.hh
FragmentSampler.cc	scoring / MembraneTopology.hh
FragmentSampler.cc	pose / Pose.hh
FragmentSampler.cc	conformation / Residue.hh
FragmentSampler.cc	scoring / ScoreFunction.fwd.hh
FragmentSampler.cc	scoring / ScoreFunction.hh
FragmentSampler.cc	scoring / ScoreFunctionFactory.hh
FragmentSampler.cc	scoring / ScoreType.hh
FragmentSampler.cc	types.hh
FragmentSampler.hh	pose / datacache / CacheableDataType.hh
FragmentSampler.hh	pose / Pose.fwd.hh
FragmentSampler.hh	scoring / ScoreFunction.fwd.hh
FragmentSampler.hh	scoring / ScoreType.hh
FragmentSampler.hh	types.hh
HedgeArchive.cc	io / silent / SilentFileData.hh
HedgeArchive.cc	io / silent / SilentFileOptions.hh
HedgeArchive.cc	io / silent / SilentStruct.hh
HedgeArchive.hh	pose / Pose.fwd.hh
HedgeArchive.hh	io / silent / silent.fwd.hh
HedgeArchive.hh	types.hh
IterativeAbrelax.cc	pose / Pose.hh
IterativeAbrelax.cc	scoring / ScoreFunction.fwd.hh
IterativeAbrelax.cc	io / silent / SilentFileData.hh
IterativeAbrelax.cc	io / silent / SilentStruct.hh
IterativeAbrelax.cc	types.hh
IterativeAbrelax.hh	pose / Pose.fwd.hh
IterativeAbrelax.hh	types.hh
IterativeBase.cc	pose / annotated_sequence.hh
IterativeBase.cc	chemical / ChemicalManager.hh
IterativeBase.cc	fragment / ConstantLengthFragSet.hh
IterativeBase.cc	scoring / constraints / ConstraintIO.hh
IterativeBase.cc	scoring / constraints / ConstraintSet.hh
IterativeBase.cc	scoring / Energies.hh
IterativeBase.cc	fragment / FragmentIO.hh
IterativeBase.cc	import_pose / import_pose.hh
IterativeBase.cc	pose / Pose.hh
IterativeBase.cc	scoring / ResidualDipolarCoupling.hh
IterativeBase.cc	scoring / ScoreFunction.fwd.hh
IterativeBase.cc	scoring / ScoreFunctionFactory.hh
IterativeBase.cc	scoring / ScoreType.hh
IterativeBase.cc	fragment / SecondaryStructure.hh
IterativeBase.cc	sequence / Sequence.hh
IterativeBase.cc	io / silent / SilentFileData.hh
IterativeBase.cc	io / silent / SilentFileOptions.hh
IterativeBase.cc	io / silent / SilentStruct.hh
IterativeBase.cc	types.hh
IterativeBase.cc	sequence / util.hh
IterativeBase.cc	fragment / util.hh
IterativeBase.cc	scoring / constraints / util.hh
IterativeBase.cc	pose / util.hh
IterativeBase.hh	fragment / FragSet.fwd.hh
IterativeBase.hh	pose / Pose.fwd.hh
IterativeBase.hh	types.hh
IterativeCentroid.cc	scoring / ScoreFunction.fwd.hh
IterativeCentroid.cc	io / silent / SilentFileData.hh
IterativeCentroid.cc	io / silent / SilentStruct.hh
IterativeCentroid.cc	types.hh
IterativeCentroid.hh	io / silent / SilentStruct.hh
IterativeFullatom.cc	scoring / ScoreFunction.fwd.hh
IterativeFullatom.cc	scoring / ScoreFunction.hh
IterativeFullatom.cc	scoring / ScoreFunctionFactory.hh
IterativeFullatom.cc	io / silent / SilentFileData.hh
IterativeFullatom.cc	io / silent / SilentFileOptions.hh
IterativeFullatom.cc	io / silent / SilentStruct.hh
IterativeFullatom.cc	types.hh
IterativeFullatom.hh	pose / Pose.fwd.hh
IterativeFullatom.hh	types.hh
KinematicAbinitio.cc	scoring / constraints / Constraint.fwd.hh
KinematicAbinitio.cc	scoring / constraints / ConstraintSet.hh
KinematicAbinitio.cc	fragment / FragmentIO.hh
KinematicAbinitio.cc	fragment / FragSet.hh
KinematicAbinitio.cc	fragment / Frame.hh
KinematicAbinitio.cc	fragment / FrameList.hh
KinematicAbinitio.cc	kinematics / MoveMap.hh
KinematicAbinitio.cc	fragment / OrderedFragSet.hh
KinematicAbinitio.cc	pose / Pose.hh
KinematicAbinitio.cc	io / silent / ProteinSilentStruct.hh
KinematicAbinitio.cc	io / silent / ProteinSilentStruct.tmpl.hh
KinematicAbinitio.cc	scoring / ScoreFunction.hh
KinematicAbinitio.cc	io / silent / SilentFileData.hh
KinematicAbinitio.cc	io / silent / SilentFileOptions.hh
KinematicAbinitio.cc	scoring / func / SkipViolFunc.hh
KinematicAbinitio.cc	types.hh
KinematicAbinitio.hh	scoring / constraints / ConstraintSet.hh
KinematicAbinitio.hh	kinematics / FoldTree.fwd.hh
KinematicAbinitio.hh	fragment / FragSet.fwd.hh
KinematicAbinitio.hh	kinematics / MoveMap.fwd.hh
KinematicAbinitio.hh	pose / Pose.fwd.hh
KinematicAbinitio.hh	kinematics / ShortestPathInFoldTree.fwd.hh
KinematicAbinitio.hh	types.hh
KinematicControl.cc	chemical / AtomType.hh
KinematicControl.cc	kinematics / MoveMap.hh
KinematicControl.cc	pose / Pose.hh
KinematicControl.cc	scoring / ScoreFunction.hh
KinematicControl.cc	kinematics / ShortestPathInFoldTree.hh
KinematicControl.cc	pose / variant_util.hh
KinematicControl.cc	chemical / VariantType.hh
KinematicControl.hh	kinematics / FoldTree.hh
KinematicControl.hh	kinematics / MoveMap.fwd.hh
KinematicControl.hh	pose / Pose.fwd.hh
KinematicControl.hh	scoring / ScoreFunction.fwd.hh
KinematicControl.hh	kinematics / ShortestPathInFoldTree.fwd.hh
KinematicControl.hh	types.hh
KinematicTaskControl.cc	pose / Pose.hh
KinematicTaskControl.cc	conformation / util.hh
KinematicTaskControl.cc	kinematics / util.hh
KinematicTaskControl.hh	pose / Pose.fwd.hh
KinematicTaskControl.hh	types.hh
LoopJumpFoldCst.cc	fragment / FragSet.hh
LoopJumpFoldCst.cc	kinematics / MoveMap.hh
LoopJumpFoldCst.cc	pose / Pose.hh
LoopJumpFoldCst.hh	pose / Pose.fwd.hh
LoopJumpFoldCst.hh	fragment / SecondaryStructure.hh
LoopJumpFoldCst.hh	types.hh
MembraneAbinitio.cc	pose / datacache / CacheableDataType.hh
MembraneAbinitio.cc	fragment / FragSet.hh
MembraneAbinitio.cc	scoring / MembranePotential.fwd.hh
MembraneAbinitio.cc	scoring / MembranePotential.hh
MembraneAbinitio.cc	scoring / MembraneTopology.hh
MembraneAbinitio.cc	kinematics / MoveMap.hh
MembraneAbinitio.cc	pose / Pose.hh
MembraneAbinitio.cc	io / silent / ProteinSilentStruct.hh
MembraneAbinitio.cc	io / silent / ProteinSilentStruct.tmpl.hh
MembraneAbinitio.cc	scoring / ScoreFunction.fwd.hh
MembraneAbinitio.cc	scoring / ScoreFunctionFactory.hh
MembraneAbinitio.cc	scoring / ScoreType.hh
MembraneAbinitio.cc	io / silent / SilentFileData.hh
MembraneAbinitio.cc	io / silent / SilentFileOptions.hh
MembraneAbinitio.cc	types.hh
MembraneAbinitio.hh	fragment / FragSet.fwd.hh
MembraneAbinitio.hh	scoring / MembranePotential.fwd.hh
MembraneAbinitio.hh	scoring / MembraneTopology.fwd.hh
MembraneAbinitio.hh	kinematics / MoveMap.fwd.hh
MembraneAbinitio.hh	pose / Pose.fwd.hh
MembraneAbinitio.hh	scoring / ScoreFunction.fwd.hh
MembraneAbinitio.hh	scoring / ScoreType.hh
MembraneAbinitio.hh	types.hh
PairingStatistics.cc	fragment / FragSet.fwd.hh
PairingStatistics.cc	id / SequenceMapping.hh
PairingStatistics.cc	types.hh
PairingStatistics.hh	scoring / dssp / PairingsList.fwd.hh
PairingStatistics.hh	pose / Pose.fwd.hh
PairingStatistics.hh	scoring / dssp / StrandPairing.hh
PairingStatistics.hh	types.hh
Protocol.cc	io / silent / SilentFileData.hh
Protocol.cc	io / silent / SilentFileOptions.hh
Protocol.cc	io / silent / SilentStruct.hh
Protocol.cc	io / silent / SilentStructFactory.hh
Protocol.hh	scoring / ScoreFunction.hh
Protocol.hh	io / silent / silent.fwd.hh
ResolutionSwitcher.cc	optimization / AtomTreeMinimizer.hh
ResolutionSwitcher.cc	chemical / ChemicalManager.fwd.hh
ResolutionSwitcher.cc	conformation / Conformation.hh
ResolutionSwitcher.cc	scoring / constraints / ConstraintSet.hh
ResolutionSwitcher.cc	optimization / MinimizerOptions.hh
ResolutionSwitcher.cc	kinematics / MoveMap.hh
ResolutionSwitcher.cc	pack / task / PackerTask.hh
ResolutionSwitcher.cc	pose / Pose.hh
ResolutionSwitcher.cc	scoring / ScoreFunction.hh
ResolutionSwitcher.cc	scoring / ScoreFunctionFactory.hh
ResolutionSwitcher.cc	id / SequenceMapping.hh
ResolutionSwitcher.cc	util / SwitchResidueTypeSet.hh
ResolutionSwitcher.cc	pack / task / TaskFactory.hh
ResolutionSwitcher.cc	pose / variant_util.hh
ResolutionSwitcher.cc	chemical / VariantType.hh
ResolutionSwitcher.hh	pose / Pose.hh
ResolutionSwitcher.hh	scoring / ScoreFunction.hh
abscript / RigidChunkCM.cc	kinematics / AtomTree.hh
abscript / RigidChunkCM.cc	chemical / ChemicalManager.hh
abscript / RigidChunkCM.cc	environment / DofPassport.hh
abscript / RigidChunkCM.cc	kinematics / FoldTree.hh
abscript / RigidChunkCM.cc	import_pose / import_pose.hh
abscript / RigidChunkCM.cc	kinematics / MoveMap.hh
abscript / RigidChunkCM.cc	pose / Pose.hh
abscript / RigidChunkCM.cc	chemical / ResidueConnection.hh
abscript / RigidChunkCM.cc	select / residue_selector / ResidueIndexSelector.hh
abscript / RigidChunkCM.cc	chemical / ResidueProperties.hh
abscript / RigidChunkCM.cc	select / residue_selector / TrueResidueSelector.hh
abscript / RigidChunkCM.cc	select / residue_selector / util.hh
abscript / RigidChunkCM.cc	pose / util.hh
abscript / RigidChunkCM.hh	select / residue_selector / ResidueSelector.hh
abscript / StageID.hh	types.hh
abscript / StagePreparer.cc	environment / DofPassport.hh
abscript / StagePreparer.hh	pose / Pose.hh
StrandConstraints.cc	scoring / constraints / AmbiguousConstraint.hh
StrandConstraints.cc	id / AtomID.hh
StrandConstraints.cc	scoring / constraints / AtomPairConstraint.hh
StrandConstraints.cc	scoring / constraints / BoundConstraint.hh
StrandConstraints.cc	scoring / func / HarmonicFunc.hh
StrandConstraints.cc	id / NamedAtomID.hh
StrandConstraints.cc	types.hh
StrandConstraints.cc	pose / util.hh
StrandConstraints.hh	scoring / constraints / Constraint.fwd.hh
StrandConstraints.hh	scoring / dssp / PairingsList.fwd.hh
StrandConstraints.hh	pose / Pose.fwd.hh
StrandConstraints.hh	scoring / dssp / StrandPairing.hh
StrandConstraints.hh	types.hh
abscript / StructPerturberCM.cc	id / DOF_ID.hh
abscript / StructPerturberCM.cc	environment / DofPassport.hh
abscript / StructPerturberCM.cc	kinematics / MoveMap.hh
abscript / StructPerturberCM.cc	id / TorsionID.hh
Template.cc	id / AtomID.hh
Template.cc	scoring / constraints / AtomPairConstraint.hh
Template.cc	scoring / constraints / ConstraintIO.hh
Template.cc	scoring / constraints / ConstraintSet.hh
Template.cc	sequence / DerivedSequenceMapping.hh
Template.cc	fragment / FragData.hh
Template.cc	fragment / FragSet.hh
Template.cc	fragment / Frame.hh
Template.cc	fragment / FrameList.hh
Template.cc	scoring / func / HarmonicFunc.hh
Template.cc	kinematics / MoveMap.hh
Template.cc	scoring / constraints / NamedAtomPairConstraint.hh
Template.cc	scoring / dssp / PairingsList.hh
Template.cc	pose / Pose.hh
Template.cc	conformation / Residue.hh
Template.cc	scoring / dssp / StrandPairing.hh
Template.cc	types.hh
Template.cc	sequence / util.hh
Template.hh	scoring / constraints / AtomPairConstraint.fwd.hh
Template.hh	sequence / DerivedSequenceMapping.hh
Template.hh	fragment / FragSet.fwd.hh
Template.hh	fragment / FrameList.fwd.hh
Template.hh	scoring / constraints / NamedAtomPairConstraint.fwd.hh
Template.hh	scoring / dssp / PairingsList.fwd.hh
Template.hh	pose / Pose.fwd.hh
Template.hh	fragment / SingleResidueFragData.fwd.hh
Template.hh	scoring / dssp / StrandPairing.fwd.hh
Template.hh	types.hh
TemplateJumpSetup.cc	fragment / FragSet.hh
TemplateJumpSetup.cc	fragment / Frame.hh
TemplateJumpSetup.cc	fragment / FrameList.hh
TemplateJumpSetup.cc	kinematics / MoveMap.hh
TemplateJumpSetup.cc	fragment / OrderedFragSet.hh
TemplateJumpSetup.cc	fragment / SecondaryStructure.hh
TemplateJumpSetup.cc	types.hh
TemplateJumpSetup.hh	fragment / FragData.fwd.hh
TemplateJumpSetup.hh	fragment / FragSet.fwd.hh
TemplateJumpSetup.hh	fragment / FrameList.fwd.hh
TemplateJumpSetup.hh	scoring / dssp / PairingsList.hh
TemplateJumpSetup.hh	types.hh
Templates.cc	id / AtomID.hh
Templates.cc	scoring / constraints / AtomPairConstraint.hh
Templates.cc	chemical / ChemicalManager.fwd.hh
Templates.cc	fragment / ConstantLengthFragSet.hh
Templates.cc	scoring / constraints / ConstraintSet.hh
Templates.cc	pose / extra_pose_info_util.hh
Templates.cc	fragment / FragData.hh
Templates.cc	fragment / FragID_Iterator.hh
Templates.cc	fragment / FragSet.hh
Templates.cc	fragment / FrameIteratorWorker_.hh
Templates.cc	import_pose / import_pose.hh
Templates.cc	scoring / constraints / NamedAtomPairConstraint.hh
Templates.cc	pose / Pose.hh
Templates.cc	fragment / SecondaryStructure.hh
Templates.cc	fragment / SecstructSRFD.hh
Templates.cc	id / SequenceMapping.hh
Templates.cc	util / SwitchResidueTypeSet.hh
Templates.cc	types.hh
Templates.cc	pose / util.hh
Templates.hh	scoring / constraints / ConstraintSet.fwd.hh
Templates.hh	fragment / FragData.fwd.hh
Templates.hh	fragment / FragSet.fwd.hh
Templates.hh	scoring / dssp / PairingsList.fwd.hh
Templates.hh	scoring / dssp / PairingsList.hh
Templates.hh	pose / Pose.fwd.hh
Templates.hh	fragment / SecondaryStructure.fwd.hh
Templates.hh	fragment / SingleResidueFragData.fwd.hh
Templates.hh	types.hh
util.cc	scoring / constraints / BoundConstraint.hh
util.cc	scoring / constraints / ConstraintIO.hh
util.cc	scoring / func / FuncFactory.hh
util.cc	io / silent / SilentStruct.hh
vs_test.cc	chemical / ChemicalManager.hh
vs_test.cc	kinematics / MoveMap.hh
vs_test.cc	pose / Pose.hh
vs_test.cc	io / silent / ProteinSilentStruct.hh
vs_test.cc	io / silent / ProteinSilentStruct.tmpl.hh
vs_test.cc	scoring / ScoreFunction.fwd.hh
vs_test.cc	scoring / ScoreFunction.hh
vs_test.cc	scoring / ScoreFunctionFactory.hh
vs_test.cc	sequence / Sequence.hh
vs_test.cc	io / silent / SilentFileData.hh
vs_test.cc	io / silent / SilentFileOptions.hh
vs_test.cc	io / silent / SilentStruct.hh
vs_test.cc	types.hh
vs_test.cc	sequence / util.hh