ligand_docking → core Relation

File in src/protocols/ligand_docking	Includes file in src/core
AddHydrogen.cc	chemical / ChemicalManager.hh
AddHydrogen.cc	conformation / Conformation.hh
AddHydrogen.cc	chemical / MutableResidueType.hh
AddHydrogen.cc	chemical / PatchOperation.hh
AddHydrogen.cc	pose / Pose.hh
AddHydrogen.cc	chemical / PoseResidueTypeSet.hh
AddHydrogen.cc	conformation / Residue.hh
AddHydrogen.cc	chemical / ResidueConnection.hh
AddHydrogen.cc	chemical / ResidueTypeSet.hh
AddHydrogen.cc	types.hh
AddHydrogen.hh	pose / Pose.fwd.hh
AddHydrogens.cc	pose / chains_util.hh
AddHydrogens.cc	conformation / Conformation.hh
AddHydrogens.cc	pose / Pose.hh
AddHydrogens.cc	types.hh
AddHydrogens.hh	pose / Pose.fwd.hh
AtomCountFilter.cc	pose / chains_util.hh
AtomCountFilter.cc	conformation / Conformation.hh
AtomCountFilter.cc	pose / Pose.hh
AtomCountFilter.cc	types.hh
AtomCountFilter.cc	pose / util.hh
AtomCountFilter.hh	types.hh
ChainExistsFilter.cc	pose / chains_util.hh
ChainExistsFilter.cc	pose / Pose.fwd.hh
ChainExistsFilter.cc	types.hh
CompleteConnectionsFilter.cc	pose / chains_util.hh
CompleteConnectionsFilter.cc	conformation / Conformation.hh
CompleteConnectionsFilter.cc	pose / Pose.hh
CompleteConnectionsFilter.cc	types.hh
CompoundTranslate.cc	pose / chains_util.hh
CompoundTranslate.cc	types.hh
ComputeLigandRDF.cc	id / AtomID.hh
ComputeLigandRDF.cc	chemical / AtomType.hh
ComputeLigandRDF.cc	pose / chains_util.hh
ComputeLigandRDF.cc	conformation / Conformation.hh
ComputeLigandRDF.cc	scoring / Energies.hh
ComputeLigandRDF.cc	pose / Pose.hh
ComputeLigandRDF.cc	chemical / ResidueType.hh
ComputeLigandRDF.cc	scoring / TenANeighborGraph.hh
ComputeLigandRDF.hh	id / AtomID.fwd.hh
ComputeLigandRDF.hh	pose / Pose.fwd.hh
GALigandDock / EntropyEstimator.cc	chemical / AA.hh
GALigandDock / EntropyEstimator.cc	conformation / Conformation.hh
GALigandDock / EntropyEstimator.cc	kinematics / FoldTree.hh
GALigandDock / EntropyEstimator.cc	kinematics / MoveMap.hh
GALigandDock / EntropyEstimator.cc	pose / Pose.hh
GALigandDock / EntropyEstimator.cc	conformation / Residue.hh
GALigandDock / EntropyEstimator.cc	chemical / ResidueType.hh
GALigandDock / EntropyEstimator.cc	scoring / ScoreFunction.hh
GALigandDock / EntropyEstimator.cc	pose / util.hh
GALigandDock / EntropyEstimator.hh	pose / Pose.fwd.hh
GALigandDock / EntropyEstimator.hh	scoring / ScoreFunction.fwd.hh
GALigandDock / EntropyEstimator.hh	types.hh
FinalMinimizer.cc	kinematics / FoldTree.hh
FinalMinimizer.cc	optimization / MinimizerOptions.hh
FinalMinimizer.cc	kinematics / MoveMap.hh
FinalMinimizer.cc	pose / Pose.hh
FinalMinimizer.cc	scoring / ScoreFunction.hh
FinalMinimizer.cc	types.hh
FinalMinimizer.hh	scoring / ScoreFunction.fwd.hh
GALigandDock / GALigandDock.cc	scoring / constraints / AngleConstraint.hh
GALigandDock / GALigandDock.cc	id / AtomID.hh
GALigandDock / GALigandDock.cc	scoring / constraints / AtomPairConstraint.hh
GALigandDock / GALigandDock.cc	optimization / AtomTreeMinimizer.hh
GALigandDock / GALigandDock.cc	optimization / CartesianMinimizer.hh
GALigandDock / GALigandDock.cc	chemical / ChemicalManager.hh
GALigandDock / GALigandDock.cc	scoring / func / CircularHarmonicFunc.hh
GALigandDock / GALigandDock.cc	scoring / constraints / Constraint.fwd.hh
GALigandDock / GALigandDock.cc	scoring / constraints / CoordinateConstraint.hh
GALigandDock / GALigandDock.cc	scoring / constraints / DihedralConstraint.hh
GALigandDock / GALigandDock.cc	scoring / electron_density / ElectronDensity.hh
GALigandDock / GALigandDock.cc	scoring / Energies.hh
GALigandDock / GALigandDock.cc	pose / extra_pose_info_util.hh
GALigandDock / GALigandDock.cc	kinematics / FoldTree.hh
GALigandDock / GALigandDock.cc	scoring / func / HarmonicFunc.hh
GALigandDock / GALigandDock.cc	import_pose / import_pose.hh
GALigandDock / GALigandDock.cc	kinematics / Jump.hh
GALigandDock / GALigandDock.cc	optimization / MinimizerOptions.hh
GALigandDock / GALigandDock.cc	kinematics / MoveMap.hh
GALigandDock / GALigandDock.cc	pack / optimizeH.hh
GALigandDock / GALigandDock.cc	pack / pack_rotamers.hh
GALigandDock / GALigandDock.cc	pack / task / PackerTask.hh
GALigandDock / GALigandDock.cc	pose / PDBInfo.hh
GALigandDock / GALigandDock.cc	conformation / Residue.hh
GALigandDock / GALigandDock.cc	pack / task / ResidueLevelTask.hh
GALigandDock / GALigandDock.cc	select / residue_selector / ResidueSelector.hh
GALigandDock / GALigandDock.cc	chemical / ResidueTypeSet.hh
GALigandDock / GALigandDock.cc	scoring / rms_util.hh
GALigandDock / GALigandDock.cc	scoring / func / ScalarWeightedFunc.hh
GALigandDock / GALigandDock.cc	scoring / ScoreFunctionFactory.hh
GALigandDock / GALigandDock.cc	scoring / ScoreType.hh
GALigandDock / GALigandDock.cc	pose / selection.hh
GALigandDock / GALigandDock.cc	io / silent / SilentFileData.hh
GALigandDock / GALigandDock.cc	io / silent / SilentFileOptions.hh
GALigandDock / GALigandDock.cc	pose / subpose_manipulation_util.hh
GALigandDock / GALigandDock.cc	pack / task / TaskFactory.hh
GALigandDock / GALigandDock.cc	scoring / func / TopOutFunc.hh
GALigandDock / GALigandDock.cc	conformation / util.hh
GALigandDock / GALigandDock.cc	select / util.hh
GALigandDock / GALigandDock.cc	pose / util.hh
GALigandDock / GALigandDock.hh	id / AtomID.hh
GALigandDock / GALigandDock.hh	scoring / constraints / ConstraintSet.hh
GALigandDock / GALigandDock.hh	pose / extra_pose_info_util.hh
GALigandDock / GALigandDock.hh	kinematics / FoldTree.hh
GALigandDock / GALigandDock.hh	kinematics / MoveMap.hh
GALigandDock / GALigandDock.hh	pack / task / PackerTask.hh
GALigandDock / GALigandDock.hh	select / residue_selector / ResidueSelector.fwd.hh
GALigandDock / GALigandDock.hh	io / silent / SilentFileOptions.hh
GALigandDock / GALigandDock.hh	io / silent / SilentStruct.hh
GALigandDock / GALigandDock.hh	io / silent / SilentStructFactory.hh
GALigandDock / GAOptimizer.cc	chemical / AA.hh
GALigandDock / GAOptimizer.cc	id / AtomID.hh
GALigandDock / GAOptimizer.cc	chemical / ChemicalManager.hh
GALigandDock / GAOptimizer.cc	pack / dunbrack / DunbrackRotamer.hh
GALigandDock / GAOptimizer.cc	conformation / Residue.hh
GALigandDock / GAOptimizer.cc	chemical / ResidueTypeSet.hh
GALigandDock / GAOptimizer.cc	pack / dunbrack / SingleResidueDunbrackLibrary.hh
GALigandDock / GAOptimizer.cc	pack / rotamers / SingleResidueRotamerLibrary.fwd.hh
GALigandDock / GAOptimizer.cc	pack / rotamers / SingleResidueRotamerLibraryFactory.hh
GALigandDock / GAOptimizer.hh	id / AtomID.hh
grid_functions.cc	pose / Pose.hh
grid_functions.cc	conformation / Residue.hh
grid_functions.cc	chemical / ResidueType.hh
grid_functions.cc	scoring / ScoreFunction.hh
grid_functions.cc	pack / rotamers / SingleResidueRotamerLibrary.hh
grid_functions.cc	pack / rotamers / SingleResidueRotamerLibraryFactory.hh
grid_functions.hh	grid / CartGrid.hh
grid_functions.hh	pack / task / PackerTask.fwd.hh
grid_functions.hh	pose / Pose.fwd.hh
grid_functions.hh	conformation / Residue.fwd.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	optimization / atom_tree_minimize.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	kinematics / AtomTree.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	optimization / DOF_Node.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	optimization / MinimizerMap.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	optimization / NumericalDerivCheckResult.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	pose / Pose.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	id / types.hh
GALigandDock / GriddedAtomTreeMultifunc.cc	types.hh
GALigandDock / GriddedAtomTreeMultifunc.hh	optimization / MinimizerMap.fwd.hh
GALigandDock / GriddedAtomTreeMultifunc.hh	optimization / Multifunc.hh
GALigandDock / GridHash3D.hh	conformation / Atom.hh
GALigandDock / GridHash3D.hh	scoring / lkball / LK_BallInfo.hh
GALigandDock / GridHash3D.hh	types.hh
GALigandDock / GridHash3D.hh	scoring / hbonds / types.hh
GALigandDock / GridScorer.cc	conformation / Atom.hh
GALigandDock / GridScorer.cc	optimization / AtomTreeMinimizer.hh
GALigandDock / GridScorer.cc	chemical / AtomType.hh
GALigandDock / GridScorer.cc	chemical / AtomTypeSet.hh
GALigandDock / GridScorer.cc	energy_methods / CartesianBondedEnergy.hh
GALigandDock / GridScorer.cc	chemical / ChemicalManager.hh
GALigandDock / GridScorer.cc	scoring / hbonds / constants.hh
GALigandDock / GridScorer.cc	scoring / constraints / ConstraintSet.hh
GALigandDock / GridScorer.cc	scoring / etable / coulomb / Coulomb.hh
GALigandDock / GridScorer.cc	scoring / disulfides / DisulfideAtomIndices.hh
GALigandDock / GridScorer.cc	scoring / electron_density / ElectronDensity.hh
GALigandDock / GridScorer.cc	scoring / methods / EnergyMethodOptions.hh
GALigandDock / GridScorer.cc	scoring / etable / Etable.hh
GALigandDock / GridScorer.cc	scoring / disulfides / FullatomDisulfidePotential.hh
GALigandDock / GridScorer.cc	scoring / hbonds / HBondDatabase.hh
GALigandDock / GridScorer.cc	scoring / hbonds / hbonds_geom.hh
GALigandDock / GridScorer.cc	scoring / lkball / LK_BallEnergy.hh
GALigandDock / GridScorer.cc	scoring / MinimizationGraph.hh
GALigandDock / GridScorer.cc	optimization / Minimizer.hh
GALigandDock / GridScorer.cc	optimization / MinimizerMap.hh
GALigandDock / GridScorer.cc	kinematics / MoveMap.hh
GALigandDock / GridScorer.cc	pose / Pose.hh
GALigandDock / GridScorer.cc	conformation / Residue.hh
GALigandDock / GridScorer.cc	conformation / residue_datacache.hh
GALigandDock / GridScorer.cc	chemical / ResidueConnection.hh
GALigandDock / GridScorer.cc	scoring / ScoreFunction.hh
GALigandDock / GridScorer.cc	scoring / ScoreFunctionFactory.hh
GALigandDock / GridScorer.cc	scoring / ScoreType.hh
GALigandDock / GridScorer.cc	scoring / ScoringManager.hh
GALigandDock / GridScorer.cc	types.hh
GALigandDock / GridScorer.cc	scoring / electron_density / util.hh
GALigandDock / GridScorer.hh	conformation / Atom.hh
GALigandDock / GridScorer.hh	energy_methods / CartesianBondedEnergy.fwd.hh
GALigandDock / GridScorer.hh	scoring / hbonds / constants.hh
GALigandDock / GridScorer.hh	scoring / etable / coulomb / Coulomb.fwd.hh
GALigandDock / GridScorer.hh	scoring / etable / Etable.hh
GALigandDock / GridScorer.hh	scoring / hbonds / HBondDatabase.fwd.hh
GALigandDock / GridScorer.hh	scoring / hbonds / HBondDatabase.hh
GALigandDock / GridScorer.hh	scoring / hbonds / HBondOptions.hh
GALigandDock / GridScorer.hh	scoring / hbonds / hbonds_geom.hh
GALigandDock / GridScorer.hh	scoring / lkball / LK_BallEnergy.fwd.hh
GALigandDock / GridScorer.hh	optimization / MinimizerMap.fwd.hh
GALigandDock / GridScorer.hh	optimization / MinimizerOptions.fwd.hh
GALigandDock / GridScorer.hh	pose / Pose.fwd.hh
GALigandDock / GridScorer.hh	conformation / Residue.fwd.hh
GALigandDock / GridScorer.hh	scoring / ScoreFunction.hh
GALigandDock / GridScorer.hh	types.hh
GrowLigand.cc	pose / chains_util.hh
GrowLigand.cc	chemical / ChemicalManager.hh
GrowLigand.cc	conformation / Conformation.hh
GrowLigand.cc	pose / Pose.hh
GrowLigand.cc	conformation / Residue.hh
GrowLigand.cc	chemical / ResidueTypeFinder.hh
GrowLigand.cc	types.hh
GrowLigand.hh	pose / Pose.fwd.hh
GrowLigand.hh	conformation / Residue.fwd.hh
HBondAcceptorFilter.cc	pose / chains_util.hh
HBondAcceptorFilter.cc	conformation / Conformation.hh
HBondAcceptorFilter.cc	pose / Pose.hh
HBondAcceptorFilter.cc	types.hh
HBondAcceptorFilter.cc	pose / util.hh
HBondAcceptorFilter.hh	types.hh
HBondDonorFilter.cc	pose / chains_util.hh
HBondDonorFilter.cc	conformation / Conformation.hh
HBondDonorFilter.cc	pose / Pose.hh
HBondDonorFilter.cc	types.hh
HBondDonorFilter.cc	pose / util.hh
HBondDonorFilter.hh	types.hh
HeavyAtomFilter.cc	pose / chains_util.hh
HeavyAtomFilter.cc	conformation / Conformation.hh
HeavyAtomFilter.cc	pose / Pose.hh
HeavyAtomFilter.cc	types.hh
HeavyAtomFilter.cc	pose / util.hh
HeavyAtomFilter.hh	types.hh
HighResDocker.cc	pose / chains_util.hh
HighResDocker.cc	pack / palette / CustomBaseTypePackerPalette.hh
HighResDocker.cc	optimization / MinimizerOptions.hh
HighResDocker.cc	kinematics / MoveMap.hh
HighResDocker.cc	pack / palette / PackerPalette.hh
HighResDocker.cc	pack / task / PackerTask.hh
HighResDocker.cc	pose / Pose.hh
HighResDocker.cc	pack / task / ResfileReader.hh
HighResDocker.cc	conformation / Residue.hh
HighResDocker.cc	pack / task / ResidueLevelTask.hh
HighResDocker.cc	chemical / ResidueType.hh
HighResDocker.cc	chemical / ResidueTypeFinder.hh
HighResDocker.cc	chemical / ResidueTypeSet.hh
HighResDocker.cc	scoring / ScoreFunction.hh
HighResDocker.cc	pack / task / TaskFactory.hh
HighResDocker.cc	types.hh
HighResDocker.cc	pack / rotamer_set / UnboundRotamersOperation.hh
HighResDocker.cc	pose / util.hh
HighResDocker.hh	pack / task / PackerTask.fwd.hh
HighResDocker.hh	pose / Pose.fwd.hh
HighResDocker.hh	scoring / ScoreFunction.fwd.hh
HighResDocker.hh	types.hh
HighResEnsemble.cc	pose / chains_util.hh
HighResEnsemble.cc	conformation / Conformation.hh
HighResEnsemble.cc	pose / Pose.hh
HighResEnsemble.cc	conformation / Residue.hh
HighResEnsemble.cc	scoring / ScoreFunction.hh
HighResEnsemble.cc	types.hh
HighResEnsemble.hh	pose / Pose.hh
HighResEnsemble.hh	scoring / ScoreFunction.fwd.hh
HighResEnsemble.hh	types.hh
InterfaceBuilder.cc	pose / chains_util.hh
InterfaceBuilder.cc	conformation / Conformation.hh
InterfaceBuilder.cc	pose / Pose.hh
InterfaceBuilder.cc	types.hh
InterfaceBuilder.hh	pose / Pose.fwd.hh
InterfaceBuilder.hh	conformation / Residue.fwd.hh
InterfaceBuilder.hh	types.hh
InterfaceScoreCalculator.cc	pose / chains_util.hh
InterfaceScoreCalculator.cc	scoring / Energies.hh
InterfaceScoreCalculator.cc	import_pose / import_pose.hh
InterfaceScoreCalculator.cc	pose / Pose.hh
InterfaceScoreCalculator.cc	scoring / ScoreFunction.hh
InterfaceScoreCalculator.cc	types.hh
InterfaceScoreCalculator.hh	scoring / ScoreFunction.fwd.hh
ligand_dock_impl.cc	chemical / ChemicalManager.hh
ligand_dock_impl.cc	import_pose / import_pose.hh
ligand_dock_impl.cc	pose / Pose.hh
ligand_dock_impl.cc	scoring / ScoreFunction.hh
ligand_dock_impl.cc	types.hh
ligand_functions.cc	scoring / constraints / AmbiguousConstraint.hh
ligand_functions.cc	id / AtomID.hh
ligand_functions.cc	scoring / func / CircularHarmonicFunc.hh
ligand_functions.cc	scoring / constraints / Constraint.fwd.hh
ligand_functions.cc	scoring / constraints / ConstraintSet.hh
ligand_functions.cc	scoring / constraints / DihedralConstraint.hh
ligand_functions.cc	pack / palette / NoDesignPackerPalette.hh
ligand_functions.cc	pack / task / PackerTask.fwd.hh
ligand_functions.cc	pose / Pose.hh
ligand_functions.cc	conformation / Residue.hh
ligand_functions.cc	pack / task / TaskFactory.hh
ligand_functions.hh	scoring / constraints / Constraint.fwd.hh
ligand_functions.hh	pose / Pose.fwd.hh
ligand_functions.hh	conformation / Residue.fwd.hh
ligand_functions.hh	chemical / ResidueType.fwd.hh
ligand_scores.cc	pose / chains_util.hh
ligand_scores.cc	select / residue_selector / ChainSelector.hh
ligand_scores.cc	conformation / Conformation.hh
ligand_scores.cc	scoring / Energies.hh
ligand_scores.cc	kinematics / FoldTree.hh
ligand_scores.cc	conformation / membrane / MembraneInfo.hh
ligand_scores.cc	pose / PDBInfo.hh
ligand_scores.cc	conformation / Residue.hh
ligand_scores.cc	scoring / rms_util.hh
ligand_scores.cc	scoring / rms_util.tmpl.hh
ligand_scores.cc	scoring / ScoreFunction.hh
ligand_scores.cc	scoring / ScoreType.hh
ligand_scores.cc	types.hh
ligand_scores.cc	pose / util.hh
ligand_scores.cc	conformation / util.hh
ligand_scores.cc	kinematics / util.hh
ligand_scores.hh	scoring / EnergyMap.fwd.hh
ligand_scores.hh	pose / Pose.fwd.hh
ligand_scores.hh	conformation / Residue.fwd.hh
ligand_scores.hh	scoring / ScoreFunction.fwd.hh
ligand_scores.hh	types.hh
GALigandDock / LigandAligner.cc	id / AtomID.hh
GALigandDock / LigandAligner.cc	chemical / Bond.fwd.hh
GALigandDock / LigandAligner.cc	scoring / func / ConstantFunc.hh
GALigandDock / LigandAligner.cc	scoring / constraints / ConstraintSet.hh
GALigandDock / LigandAligner.cc	scoring / constraints / CoordinateConstraint.hh
GALigandDock / LigandAligner.cc	scoring / electron_density / ElectronDensity.hh
GALigandDock / LigandAligner.cc	scoring / methods / EnergyMethodOptions.hh
GALigandDock / LigandAligner.cc	kinematics / FoldTree.hh
GALigandDock / LigandAligner.cc	scoring / func / HarmonicFunc.hh
GALigandDock / LigandAligner.cc	scoring / hbonds / hbonds.hh
GALigandDock / LigandAligner.cc	scoring / hbonds / HBondSet.hh
GALigandDock / LigandAligner.cc	scoring / func / LinearPenaltyFunction.hh
GALigandDock / LigandAligner.cc	scoring / lkball / LK_BallEnergy.hh
GALigandDock / LigandAligner.cc	optimization / Minimizer.hh
GALigandDock / LigandAligner.cc	optimization / MinimizerMap.hh
GALigandDock / LigandAligner.cc	optimization / MinimizerOptions.hh
GALigandDock / LigandAligner.cc	kinematics / MoveMap.hh
GALigandDock / LigandAligner.cc	pose / Pose.hh
GALigandDock / LigandAligner.cc	conformation / Residue.hh
GALigandDock / LigandAligner.cc	conformation / residue_datacache.hh
GALigandDock / LigandAligner.cc	scoring / ScoreFunction.hh
GALigandDock / LigandAligner.cc	scoring / ScoreFunctionFactory.hh
GALigandDock / LigandAligner.cc	scoring / func / SumFunc.hh
GALigandDock / LigandAligner.cc	scoring / func / TopOutFunc.hh
GALigandDock / LigandAligner.cc	types.hh
GALigandDock / LigandAligner.hh	id / AtomID.hh
GALigandDock / LigandAligner.hh	pose / Pose.fwd.hh
GALigandDock / LigandAligner.hh	types.hh
LigandArea.cc	types.hh
LigandArea.hh	types.hh
LigandBaseProtocol.cc	kinematics / tree / Atom.hh
LigandBaseProtocol.cc	id / AtomID.hh
LigandBaseProtocol.cc	kinematics / AtomTree.hh
LigandBaseProtocol.cc	chemical / automorphism.hh
LigandBaseProtocol.cc	scoring / constraints / CoordinateConstraint.hh
LigandBaseProtocol.cc	pack / palette / CustomBaseTypePackerPalette.hh
LigandBaseProtocol.cc	scoring / Energies.hh
LigandBaseProtocol.cc	scoring / EnergyGraph.hh
LigandBaseProtocol.cc	scoring / methods / EnergyMethodOptions.hh
LigandBaseProtocol.cc	kinematics / FoldTree.hh
LigandBaseProtocol.cc	scoring / func / HarmonicFunc.hh
LigandBaseProtocol.cc	kinematics / MoveMap.hh
LigandBaseProtocol.cc	pack / task / PackerTask.hh
LigandBaseProtocol.cc	pose / Pose.hh
LigandBaseProtocol.cc	conformation / Residue.hh
LigandBaseProtocol.cc	pack / task / ResidueLevelTask.hh
LigandBaseProtocol.cc	chemical / ResidueType.hh
LigandBaseProtocol.cc	chemical / ResidueTypeFinder.hh
LigandBaseProtocol.cc	chemical / ResidueTypeSet.fwd.hh
LigandBaseProtocol.cc	scoring / ScoreFunction.hh
LigandBaseProtocol.cc	scoring / ScoreFunctionFactory.hh
LigandBaseProtocol.cc	pack / rotamers / SingleResidueRotamerLibrary.hh
LigandBaseProtocol.cc	pack / rotamers / SingleResidueRotamerLibraryFactory.hh
LigandBaseProtocol.cc	pack / task / TaskFactory.hh
LigandBaseProtocol.cc	pack / rotamer_set / UnboundRotamersOperation.hh
LigandBaseProtocol.cc	pose / variant_util.hh
LigandBaseProtocol.cc	chemical / VariantType.hh
LigandBaseProtocol.hh	import_pose / atom_tree_diffs / atom_tree_diff.hh
LigandBaseProtocol.hh	scoring / constraints / Constraint.fwd.hh
LigandBaseProtocol.hh	scoring / func / Func.fwd.hh
LigandBaseProtocol.hh	kinematics / MoveMap.fwd.hh
LigandBaseProtocol.hh	pack / task / PackerTask.fwd.hh
LigandBaseProtocol.hh	conformation / Residue.fwd.hh
LigandBaseProtocol.hh	scoring / ScoreFunction.fwd.hh
LigandBaseProtocol.hh	types.hh
LigandBaseProtocol.hh	pack / rotamer_set / UnboundRotamersOperation.fwd.hh
GALigandDock / LigandConformer.cc	id / AtomID.hh
GALigandDock / LigandConformer.cc	conformation / Conformation.hh
GALigandDock / LigandConformer.cc	scoring / electron_density / ElectronDensity.hh
GALigandDock / LigandConformer.cc	kinematics / FoldTree.hh
GALigandDock / LigandConformer.cc	pose / init_id_map.hh
GALigandDock / LigandConformer.cc	kinematics / Jump.hh
GALigandDock / LigandConformer.cc	scoring / RamaPrePro.hh
GALigandDock / LigandConformer.cc	conformation / Residue.hh
GALigandDock / LigandConformer.cc	chemical / rings / RingConformerSet.hh
GALigandDock / LigandConformer.cc	scoring / rms_util.hh
GALigandDock / LigandConformer.cc	scoring / ScoringManager.hh
GALigandDock / LigandConformer.cc	id / TorsionID.hh
GALigandDock / LigandConformer.cc	id / types.hh
GALigandDock / LigandConformer.cc	pose / util.hh
GALigandDock / LigandConformer.hh	id / AtomID.hh
GALigandDock / LigandConformer.hh	kinematics / FoldTree.fwd.hh
GALigandDock / LigandConformer.hh	pose / Pose.hh
GALigandDock / LigandConformer.hh	conformation / Residue.fwd.hh
GALigandDock / LigandConformer.hh	chemical / ResidueType.hh
GALigandDock / LigandConformer.hh	id / TorsionID.hh
GALigandDock / LigandConformer.hh	types.hh
LigandDesign.cc	chemical / ChemicalManager.hh
LigandDesign.cc	conformation / Conformation.hh
LigandDesign.cc	pose / Pose.hh
LigandDesign.cc	conformation / Residue.hh
LigandDesign.cc	chemical / ResidueTypeFinder.hh
LigandDesign.cc	types.hh
LigandDesign.cc	pose / util.hh
LigandDesign.hh	pose / Pose.fwd.hh
LigandDesign.hh	conformation / Residue.fwd.hh
LigandDockProtocol.cc	grid / CartGrid.hh
LigandDockProtocol.cc	conformation / Conformation.hh
LigandDockProtocol.cc	scoring / Energies.hh
LigandDockProtocol.cc	kinematics / FoldTree.hh
LigandDockProtocol.cc	kinematics / Jump.hh
LigandDockProtocol.cc	optimization / MinimizerOptions.hh
LigandDockProtocol.cc	kinematics / MoveMap.fwd.hh
LigandDockProtocol.cc	pack / palette / NoDesignPackerPalette.hh
LigandDockProtocol.cc	pack / task / PackerTask.hh
LigandDockProtocol.cc	pose / Pose.hh
LigandDockProtocol.cc	conformation / Residue.hh
LigandDockProtocol.cc	scoring / rms_util.hh
LigandDockProtocol.cc	pack / dunbrack / RotamerConstraint.hh
LigandDockProtocol.cc	scoring / sasa.hh
LigandDockProtocol.cc	scoring / ScoreFunction.hh
LigandDockProtocol.cc	util / SwitchResidueTypeSet.hh
LigandDockProtocol.cc	pack / task / TaskFactory.hh
LigandDockProtocol.cc	types.hh
LigandDockProtocol.hh	kinematics / MoveMap.fwd.hh
LigandDockProtocol.hh	pose / Pose.fwd.hh
LigandDockProtocol.hh	scoring / ScoreFunction.fwd.hh
GALigandDock / MCSAligner.cc	id / AtomID.hh
GALigandDock / MCSAligner.cc	chemical / AtomRefMapping.hh
GALigandDock / MCSAligner.cc	chemical / AtomType.hh
GALigandDock / MCSAligner.cc	chemical / AtomTypeSet.hh
GALigandDock / MCSAligner.cc	chemical / ChemicalManager.hh
GALigandDock / MCSAligner.cc	chemical / ElementSet.hh
GALigandDock / MCSAligner.cc	import_pose / import_pose.hh
GALigandDock / MCSAligner.cc	chemical / MMAtomTypeSet.hh
GALigandDock / MCSAligner.cc	chemical / MutableResidueType.fwd.hh
GALigandDock / MCSAligner.cc	chemical / orbitals / OrbitalTypeSet.hh
GALigandDock / MCSAligner.cc	pose / Pose.fwd.hh
GALigandDock / MCSAligner.cc	pose / Pose.hh
GALigandDock / MCSAligner.cc	chemical / rdkit / RDMolToRestype.hh
GALigandDock / MCSAligner.cc	conformation / Residue.hh
GALigandDock / MCSAligner.cc	chemical / residue_io.hh
GALigandDock / MCSAligner.cc	chemical / ResidueGraphTypes.hh
GALigandDock / MCSAligner.cc	chemical / ResidueType.hh
GALigandDock / MCSAligner.cc	chemical / ResidueTypeSet.hh
GALigandDock / MCSAligner.cc	chemical / rdkit / RestypeToRDMol.hh
GALigandDock / MCSAligner.cc	types.hh
GALigandDock / MCSAligner.cc	chemical / rdkit / util.hh
GALigandDock / MCSAligner.cc	conformation / util.hh
GALigandDock / MCSAligner.hh	id / AtomID.hh
GALigandDock / MCSAligner.hh	pose / Pose.fwd.hh
GALigandDock / MCSAligner.hh	chemical / rdkit / RestypeToRDMol.hh
GALigandDock / MCSAligner.hh	types.hh
MinimizeBackbone.cc	kinematics / tree / Atom.hh
MinimizeBackbone.cc	kinematics / AtomTree.hh
MinimizeBackbone.cc	pose / chains_util.hh
MinimizeBackbone.cc	conformation / Conformation.hh
MinimizeBackbone.cc	scoring / constraints / CoordinateConstraint.hh
MinimizeBackbone.cc	kinematics / Edge.hh
MinimizeBackbone.cc	kinematics / FoldTree.hh
MinimizeBackbone.cc	scoring / func / HarmonicFunc.hh
MinimizeBackbone.cc	pose / Pose.hh
MinimizeBackbone.cc	conformation / Residue.hh
MinimizeBackbone.cc	types.hh
MinimizeBackbone.cc	pose / variant_util.hh
MinimizeBackbone.cc	chemical / VariantType.hh
MinimizeBackbone.hh	id / AtomID.fwd.hh
MinimizeBackbone.hh	scoring / constraints / Constraint.fwd.hh
MinimizeBackbone.hh	kinematics / Edge.fwd.hh
MinimizeBackbone.hh	kinematics / FoldTree.fwd.hh
MinimizeLigand.cc	pose / chains_util.hh
MinimizeLigand.cc	conformation / Conformation.hh
MinimizeLigand.cc	pose / Pose.hh
MinimizeLigand.cc	types.hh
MolarMassFilter.cc	pose / chains_util.hh
MolarMassFilter.cc	conformation / Conformation.hh
MolarMassFilter.cc	pose / Pose.hh
MolarMassFilter.cc	types.hh
MolarMassFilter.cc	pose / util.hh
MolarMassFilter.hh	types.hh
MolecularMassFilter.cc	pose / chains_util.hh
MolecularMassFilter.cc	conformation / Conformation.hh
MolecularMassFilter.cc	pose / Pose.hh
MolecularMassFilter.cc	types.hh
MolecularMassFilter.cc	pose / util.hh
MolecularMassFilter.hh	types.hh
MoveMapBuilder.cc	pose / chains_util.hh
MoveMapBuilder.cc	conformation / Conformation.hh
MoveMapBuilder.cc	kinematics / Edge.hh
MoveMapBuilder.cc	kinematics / FoldTree.hh
MoveMapBuilder.cc	kinematics / MoveMap.hh
MoveMapBuilder.cc	pose / Pose.hh
MoveMapBuilder.cc	conformation / Residue.hh
MoveMapBuilder.cc	types.hh
MoveMapBuilder.hh	kinematics / MoveMap.fwd.hh
MoveMapBuilder.hh	pose / Pose.fwd.hh
ProtLigEnsemble.cc	chemical / AA.hh
ProtLigEnsemble.cc	pose / chains_util.hh
ProtLigEnsemble.cc	conformation / Conformation.hh
ProtLigEnsemble.cc	pack / palette / CustomBaseTypePackerPalette.hh
ProtLigEnsemble.cc	optimization / MinimizerOptions.hh
ProtLigEnsemble.cc	kinematics / MoveMap.hh
ProtLigEnsemble.cc	select / residue_selector / NeighborhoodResidueSelector.hh
ProtLigEnsemble.cc	pack / task / PackerTask.hh
ProtLigEnsemble.cc	pose / PDBInfo.hh
ProtLigEnsemble.cc	pose / Pose.hh
ProtLigEnsemble.cc	conformation / Residue.hh
ProtLigEnsemble.cc	pack / task / ResidueLevelTask.hh
ProtLigEnsemble.cc	chemical / ResidueType.hh
ProtLigEnsemble.cc	chemical / ResidueTypeFinder.hh
ProtLigEnsemble.cc	chemical / ResidueTypeSet.hh
ProtLigEnsemble.cc	scoring / ScoreFunction.hh
ProtLigEnsemble.cc	pack / task / TaskFactory.hh
ProtLigEnsemble.cc	types.hh
ProtLigEnsemble.cc	pack / rotamer_set / UnboundRotamersOperation.hh
ProtLigEnsemble.cc	pose / util.hh
ProtLigEnsemble.hh	pack / task / PackerTask.fwd.hh
ProtLigEnsemble.hh	pose / Pose.hh
ProtLigEnsemble.hh	scoring / ScoreFunction.fwd.hh
ProtLigEnsemble.hh	types.hh
RandomConformerMover.cc	pack / task / PackerTask.hh
RandomConformerMover.cc	pose / Pose.hh
RandomConformerMover.cc	conformation / Residue.fwd.hh
RandomConformerMover.cc	scoring / ScoreFunction.hh
RandomConformerMover.cc	pack / rotamers / SingleResidueRotamerLibrary.hh
RandomConformerMover.cc	pack / rotamers / SingleResidueRotamerLibraryFactory.hh
RandomConformerMover.cc	pack / task / TaskFactory.hh
RandomConformers.cc	pose / chains_util.hh
RandomConformers.cc	conformation / Conformation.hh
RandomConformers.cc	pose / Pose.hh
RandomConformers.cc	types.hh
ResidueTorsionRestraints.cc	id / AtomID.hh
ResidueTorsionRestraints.cc	scoring / func / CircularHarmonicFunc.hh
ResidueTorsionRestraints.cc	scoring / constraints / ConstraintSet.hh
ResidueTorsionRestraints.cc	scoring / constraints / DihedralConstraint.hh
ResidueTorsionRestraints.cc	scoring / func / Func.fwd.hh
ResidueTorsionRestraints.cc	pose / Pose.hh
ResidueTorsionRestraints.cc	conformation / Residue.hh
ResidueTorsionRestraints.hh	scoring / constraints / Constraint.fwd.hh
ResidueTorsionRestraints.hh	scoring / constraints / ConstraintSet.fwd.hh
ResidueTorsionRestraints.hh	pose / Pose.fwd.hh
ResidueTorsionRestraints.hh	types.hh
RigidSearchMover.cc	conformation / Conformation.hh
RigidSearchMover.cc	kinematics / Jump.hh
RigidSearchMover.cc	pose / Pose.hh
RigidSearchMover.cc	scoring / ScoreFunction.hh
RigidSearchMover.cc	kinematics / Stub.hh
RigidSearchMover.hh	pose / Pose.fwd.hh
RigidSearchMover.hh	scoring / ScoreFunction.fwd.hh
GALigandDock / RotamerData.cc	types.hh
GALigandDock / RotamerData.hh	scoring / lkball / LK_BallInfo.hh
GALigandDock / RotamerData.hh	types.hh
Rotate.cc	pose / chains_util.hh
Rotate.cc	conformation / Conformation.hh
Rotate.cc	pack / palette / NoDesignPackerPalette.hh
Rotate.cc	pack / task / PackerTask.fwd.hh
Rotate.cc	pose / Pose.hh
Rotate.cc	conformation / Residue.hh
Rotate.cc	scoring / rms_util.tmpl.hh
Rotate.cc	pack / task / TaskFactory.hh
Rotate.cc	types.hh
Rotate.cc	pose / util.hh
Rotate.hh	grid / CartGrid.fwd.hh
Rotate.hh	kinematics / Jump.hh
Rotate.hh	conformation / Residue.fwd.hh
Rotates.cc	pose / chains_util.hh
Rotates.cc	types.hh
SlideTogether.cc	pose / chains_util.hh
SlideTogether.cc	types.hh
StartFrom.cc	io / AtomInformation.hh
StartFrom.cc	pose / chains_util.hh
StartFrom.cc	io / pdb / pdb_reader.hh
StartFrom.cc	io / pose_from_sfr / PoseFromSFRBuilder.hh
StartFrom.cc	io / ResidueInformation.hh
StartFrom.cc	types.hh
StartFrom.hh	pose / Pose.fwd.hh
StartFrom.hh	types.hh
TetherLigand.cc	kinematics / tree / Atom.hh
TetherLigand.cc	kinematics / AtomTree.hh
TetherLigand.cc	pose / chains_util.hh
TetherLigand.cc	conformation / Conformation.hh
TetherLigand.cc	scoring / constraints / CoordinateConstraint.hh
TetherLigand.cc	scoring / func / HarmonicFunc.hh
TetherLigand.cc	pose / Pose.hh
TetherLigand.cc	types.hh
TetherLigand.hh	scoring / constraints / Constraint.fwd.hh
GALigandDock / TorsionSampler.cc	chemical / AtomTypeSet.hh
GALigandDock / TorsionSampler.cc	chemical / ChemicalManager.hh
GALigandDock / TorsionSampler.cc	scoring / GenericBondedPotential.fwd.hh
GALigandDock / TorsionSampler.cc	scoring / GenericBondedPotential.hh
GALigandDock / TorsionSampler.hh	chemical / Bond.fwd.hh
GALigandDock / TorsionSampler.hh	types.hh
Transform.cc	pose / chains_util.hh
Transform.cc	conformation / Conformation.hh
Transform.cc	scoring / constraints / ConstraintIO.hh
Transform.cc	scoring / constraints / ConstraintSet.hh
Transform.cc	import_pose / import_pose.hh
Transform.cc	pack / palette / NoDesignPackerPalette.hh
Transform.cc	pack / task / PackerTask.fwd.hh
Transform.cc	pose / PDBInfo.hh
Transform.cc	pose / Pose.hh
Transform.cc	scoring / ScoreFunction.hh
Transform.cc	scoring / ScoreType.hh
Transform.cc	pack / task / TaskFactory.hh
Transform.cc	conformation / UltraLightResidue.hh
Transform.hh	scoring / ScoreFunction.fwd.hh
Transform.hh	conformation / UltraLightResidue.fwd.hh
TransformEnsemble.cc	pose / chains_util.hh
TransformEnsemble.cc	conformation / Conformation.hh
TransformEnsemble.cc	import_pose / import_pose.hh
TransformEnsemble.cc	pack / palette / NoDesignPackerPalette.hh
TransformEnsemble.cc	pack / task / PackerTask.fwd.hh
TransformEnsemble.cc	pose / PDBInfo.hh
TransformEnsemble.cc	pose / Pose.hh
TransformEnsemble.cc	pack / task / TaskFactory.hh
TransformEnsemble.cc	conformation / UltraLightResidue.hh
TransformEnsemble.hh	conformation / Residue.fwd.hh
TransformEnsemble.hh	conformation / UltraLightResidue.fwd.hh
Translate.cc	pose / chains_util.hh
Translate.cc	conformation / Conformation.hh
Translate.cc	pose / Pose.hh
Translate.cc	conformation / Residue.fwd.hh
Translate.cc	types.hh
Translate.hh	grid / CartGrid.fwd.hh
UnconstrainedTorsionsMover.hh	pose / Pose.fwd.hh
GALigandDock / util.cc	chemical / AA.hh
GALigandDock / util.cc	optimization / CartesianMinimizer.hh
util.cc	pose / chains_util.hh
GALigandDock / util.cc	scoring / hbonds / constants.hh
GALigandDock / util.cc	scoring / constraints / Constraint.fwd.hh
GALigandDock / util.cc	scoring / constraints / CoordinateConstraint.hh
GALigandDock / util.cc	scoring / Energies.hh
GALigandDock / util.cc	scoring / methods / EnergyMethodOptions.hh
util.cc	pose / extra_pose_info_util.hh
GALigandDock / util.cc	pose / extra_pose_info_util.hh
GALigandDock / util.cc	kinematics / FoldTree.hh
GALigandDock / util.cc	scoring / func / HarmonicFunc.hh
GALigandDock / util.cc	scoring / hbonds / HBondDatabase.hh
GALigandDock / util.cc	scoring / hbonds / HBondOptions.hh
GALigandDock / util.cc	scoring / hbonds / HBondSet.hh
GALigandDock / util.cc	optimization / MinimizerOptions.hh
GALigandDock / util.cc	kinematics / MoveMap.hh
util.cc	pose / Pose.fwd.hh
GALigandDock / util.cc	pose / Pose.hh
GALigandDock / util.cc	conformation / Residue.hh
util.cc	conformation / Residue.hh
GALigandDock / util.cc	scoring / rms_util.hh
GALigandDock / util.cc	scoring / ScoreFunction.hh
GALigandDock / util.cc	scoring / ScoreFunctionFactory.hh
GALigandDock / util.cc	scoring / ScoreType.hh
GALigandDock / util.cc	pose / subpose_manipulation_util.hh
GALigandDock / util.cc	scoring / TwelveANeighborGraph.hh
GALigandDock / util.cc	types.hh
util.cc	types.hh
GALigandDock / util.cc	pose / util.hh
GALigandDock / util.hh	scoring / hbonds / constants.hh
GALigandDock / util.hh	scoring / hbonds / HBondDatabase.hh
GALigandDock / util.hh	scoring / hbonds / HBondOptions.hh
GALigandDock / util.hh	scoring / hbonds / HBondSet.hh
util.hh	pose / Pose.fwd.hh
GALigandDock / util.hh	pose / Pose.fwd.hh
GALigandDock / util.hh	scoring / ScoreFunctionFactory.hh
GALigandDock / util.hh	types.hh
util.hh	types.hh
WriteLigandMolFile.cc	pose / chains_util.hh
WriteLigandMolFile.cc	conformation / Conformation.hh
WriteLigandMolFile.cc	chemical / sdf / mol_writer.hh
WriteLigandMolFile.cc	pose / Pose.hh
ligand_options / Interface.cc	types.hh
ligand_options / Interface.hh	types.hh
ligand_options / interface_distance_functions.cc	types.hh
ligand_options / interface_distance_functions.cc	conformation / Residue.hh
ligand_options / interface_distance_functions.hh	types.hh
ligand_options / interface_distance_functions.hh	conformation / Residue.fwd.hh
rdf / RDFBase.hh	types.hh
rdf / RDFBase.hh	id / AtomID.hh
rdf / RDFBase.hh	conformation / Atom.hh
rdf / RDFBase.hh	chemical / AtomType.hh
rdf / RDFBase.hh	pose / Pose.fwd.hh
rdf / RDFFunctionFactory.cc	scoring / ScoreFunction.fwd.hh
rdf / StandardRDFFunctions.cc	pose / Pose.hh
rdf / StandardRDFFunctions.cc	scoring / etable / Etable.fwd.hh
rdf / StandardRDFFunctions.cc	scoring / etable / coulomb / Coulomb.hh
rdf / StandardRDFFunctions.cc	scoring / etable / EtableEnergy.hh
rdf / StandardRDFFunctions.cc	scoring / ScoreFunction.hh
rdf / StandardRDFFunctions.cc	scoring / methods / EnergyMethodOptions.hh
rdf / StandardRDFFunctions.cc	scoring / ScoringManager.hh
rdf / StandardRDFFunctions.cc	scoring / hbonds / HBondSet.hh
rdf / StandardRDFFunctions.cc	scoring / orbitals / OrbitalsScore.hh
rdf / StandardRDFFunctions.cc	scoring / EnergyMap.hh
rdf / StandardRDFFunctions.cc	chemical / orbitals / OrbitalType.hh
rdf / StandardRDFFunctions.cc	conformation / Conformation.hh
rdf / StandardRDFFunctions.cc	conformation / Residue.hh
rdf / StandardRDFFunctions.hh	scoring / etable / coulomb / Coulomb.fwd.hh
rdf / StandardRDFFunctions.hh	scoring / etable / EtableEnergy.fwd.hh
rdf / StandardRDFFunctions.hh	scoring / hbonds / HBondSet.fwd.hh
rdf / StandardRDFFunctions.hh	pose / Pose.fwd.hh
rdf / StandardRDFFunctions.hh	scoring / orbitals / OrbitalsScore.fwd.hh