#(True/False - include/exclude file/dir, priority, dependency)
{
'basic' : (True, 999, []),
'core' : (True, 999, []),
'numeric' : (True, 999, []),
'protocols' : (True, 999, []),
'utility' : (True, 999, []),
'basic/database' : (False, 999, []),
'basic/datacache' : (True, 999, []),
'basic/datacache/CacheableData.hh' : (True, 10, []),
'basic/datacache/DataCache.hh' : (True, 50, []),
'basic/datacache/BasicDataCache.hh' : (True, 75, []),
'basic/datacache/CacheablePoseRawPtr.hh' : (False, 999, []),
'basic/datacache/CacheableSequenceProfile.hh' : (True, 999, []),
'basic/datacache/CacheableString.hh' : (True, 999, []),
'basic/datacache/CacheableStringFloatMap.hh' : (True, 999, []),
'basic/datacache/CacheableStringMap.hh' : (True, 999, []),
'basic/datacache/DiagnosticData.hh' : (False, 999, []),
'basic/datacache/cacheable_observers.hh' : (True, 999, []),
'core/chemical' : (True, 999, []),
'core/coarse' : (False, 999, []),
'core/conformation' : (True, 999, []),
'core/fragment' : (True, 999, []),
'core/graph' : (True, 999, []),
'core/grid' : (True, 999, []),
'core/id' : (True, 999, []),
'core/import_pose' : (True, 999, []),
'core/init.hh' : (True, 999, []),
'core/io' : (True, 999, []),
'core/kinematics' : (True, 999, []),
'core/mm' : (True, 999, []),
'core/optimization' : (True, 999, []),
'core/options' : (False, 999, []),
'core/pack' : (True, 999, []),
'core/pose' : (True, 999, []),
'core/scoring' : (True, 999, []),
'core/sequence' : (True, 999, []),
'core/svn_version.hh' : (True, 999, []),
'core/types.hh' : (True, 999, []),
'core/util' : (False, 999, []),
'core/chemical/AA.hh' : (True, 999, []),
'core/chemical/Adduct.hh' : (True, 999, []),
'core/chemical/AtomICoor.hh' : (True, 999, []),
'core/chemical/AtomType.hh' : (True, 999, []),
'core/chemical/AtomTypeSet.hh' : (True, 999, []),
'core/chemical/CSDAtomType.hh' : (True, 999, []),
'core/chemical/CSDAtomTypeSet.hh' : (False, 999, []),
'core/chemical/ChemicalManager.hh' : (True, 999, []),
'core/chemical/MMAtomType.hh' : (True, 999, []),
'core/chemical/MMAtomTypeSet.hh' : (True, 999, []),
'core/chemical/Patch.hh' : (True, 999, []),
'core/chemical/PatchOperation.hh' : (True, 999, []),
'core/chemical/ResConnID.hh' : (True, 999, []),
'core/chemical/ResidueConnection.hh' : (True, 999, []),
'core/chemical/ResidueSelector.hh' : (True, 999, []),
'core/chemical/ResidueSupport.hh' : (True, 999, []),
'core/chemical/ResidueType.hh' : (True, 999, []),
'core/chemical/ResidueTypeSet.hh' : (True, 999, []),
'core/chemical/VariantType.hh' : (True, 999, []),
'core/chemical/adduct_util.hh' : (False, 999, []),
'core/chemical/automorphism.hh' : (True, 999, []),
'core/chemical/disulfide_util.hh' : (True, 999, []),
'core/chemical/residue_io.hh' : (True, 999, []),
'core/chemical/types.hh' : (True, 999, []),
'core/chemical/util.hh' : (True, 999, []),
'core/conformation/Atom.hh' : (True, 999, []),
'core/conformation/Conformation.hh' : (True, 999, []),
'core/conformation/Interface.hh' : (True, 999, []),
'core/conformation/PseudoBond.hh' : (True, 999, []),
'core/conformation/Residue.functions.hh' : (True, 999, []),
'core/conformation/Residue.hh' : (True, 999, []),
'core/conformation/ResidueFactory.hh' : (True, 999, []),
'core/conformation/ResidueMatcher.hh' : (True, 999, []),
'core/conformation/signals' : (False, 999, []),
'core/conformation/symmetry' : (False, 999, []),
'core/conformation/util.hh' : (True, 999, []),
'core/fragment/SingleResidueFragData.hh' : (True, 200, []),
'core/fragment/SecstructSRFD.hh' : (True, 300, []),
'core/fragment/BBTorsionSRFD.hh' : (True, 400, []),
'core/fragment/FragSet.hh' : (True, 600, []),
'core/fragment/FrameIteratorWorker_.hh' : (True, 600, []),
'core/fragment/BBTorsionAndAnglesSRFD.hh' : (True, 999, []),
'core/fragment/BaseCacheUnit.hh' : (True, 999, []),
'core/fragment/ConstantLengthFragSet.hh' : (True, 999, []),
'core/fragment/ConstantLengthFragSetIterator_.hh' : (True, 999, []),
'core/fragment/FragCache.hh' : (False, 999, []),
'core/fragment/FragData.hh' : (True, 999, []),
'core/fragment/FragID.hh' : (True, 999, []),
'core/fragment/FragID_Iterator.hh' : (True, 999, []),
'core/fragment/FragSetCollection.hh' : (True, 999, []),
'core/fragment/FragmentIO.hh' : (True, 999, []),
'core/fragment/Frame.hh' : (True, 999, []),
'core/fragment/FrameIterator.hh' : (True, 999, []),
'core/fragment/FrameList.hh' : (True, 999, []),
'core/fragment/FrameListIterator_.hh' : (True, 999, []),
'core/fragment/JumpSRFD.hh' : (True, 999, []),
'core/fragment/JumpingFrame.hh' : (True, 999, []),
'core/fragment/OrderedFragSet.hh' : (True, 999, []),
'core/fragment/OrderedFragSetIterator_.hh' : (True, 999, []),
'core/fragment/SRFD_Implementations.hh' : (False, 999, []),
'core/fragment/TorsionSRFD.hh' : (False, 999, []),
'core/fragment/io' : (False, 999, []),
'core/fragment/picking' : (True, 999, []),
'core/fragment/picking_old' : (False, 999, []),
'core/fragment/util.hh' : (True, 999, []),
'core/fragment/picking/FragmentLibraryManager.hh' : (True, 999, []),
'core/fragment/picking/concepts' : (False, 999, []),
'core/fragment/picking/quota' : (False, 999, []),
'core/fragment/picking/scores' : (False, 999, []),
'core/fragment/picking/vall' : (True, 999, []),
'core/fragment/picking/vall/VallLibrarian.hh' : (True, 999, []),
'core/fragment/picking/vall/VallLibrary.hh' : (True, 999, []),
'core/fragment/picking/vall/VallResidue.hh' : (True, 999, []),
'core/fragment/picking/vall/VallSection.hh' : (True, 999, []),
'core/fragment/picking/vall/eval' : (False, 999, []),
'core/fragment/picking/vall/gen' : (True, 999, []),
'core/fragment/picking/vall/scores' : (False, 999, []),
'core/fragment/picking/vall/util.hh' : (True, 999, []),
'core/fragment/picking/vall/vall_io.hh' : (True, 999, []),
'core/fragment/picking/vall/gen/LengthGen.hh' : (True, 999, []),
'core/fragment/picking/vall/gen/SecStructGen.hh' : (True, 999, []),
'core/fragment/picking/vall/gen/VallFragmentGen.hh' : (True, 999, []),
'core/fragment/picking_old/concepts' : (False, 999, []),
'core/fragment/picking_old/vall' : (False, 999, []),
'core/fragment/picking_old/vall/eval' : (False, 999, []),
'core/fragment/picking_old/vall/gen' : (False, 999, []),
'core/fragment/picking_old/vall/scores' : (False, 999, []),
'core/graph/ArrayPool.hh' : (True, 999, []),
'core/graph/DisjointSets.hh' : (False, 999, []),
'core/graph/Graph.hh' : (True, 999, []),
'core/graph/PointGraph.hh' : (True, 999, []),
'core/graph/PointGraphData.hh' : (True, 999, []),
'core/graph/UpperEdgeGraph.hh' : (False, 999, []),
'core/graph/find_neighbors.hh' : (True, 999, []),
'core/graph/graph_util.hh' : (True, 999, []),
'core/grid/CartGrid.hh' : (True, 999, []),
'core/id/types.hh' : (True, 50, []),
'core/id/TorsionID.hh' : (True, 90, []),
'core/id/NamedAtomID.hh' : (True, 100, []),
'core/id/NamedStubID.hh' : (True, 110, []),
'core/id/AtomID.hh' : (True, 200, []),
'core/id/AtomID_Map.Pose.hh' : (False, 999, []),
'core/id/AtomID_Map.hh' : (False, 999, []),
'core/id/AtomID_Mask.hh' : (True, 999, []),
'core/id/CacheableAtomID_MapVector.hh' : (True, 999, []),
'core/id/DOF_ID.hh' : (True, 999, []),
'core/id/DOF_ID_Map.hh' : (True, 999, []),
'core/id/DOF_ID_Mask.hh' : (True, 999, []),
'core/id/Exceptions.hh' : (True, 999, []),
'core/id/JumpID.hh' : (True, 999, []),
'core/id/SequenceMapping.hh' : (True, 999, []),
'core/import_pose/PDBSilentStruct.hh' : (False, 999, []),
'core/import_pose/PDBSilentStructCreator.hh' : (False, 999, []),
'core/import_pose/atom_tree_diffs' : (True, 999, []),
'core/import_pose/import_pose.hh' : (True, 999, []),
'core/import_pose/pdb_dynamic_reader.hh' : (False, 999, []),
'core/import_pose/pose_stream' : (True, 999, []),
'core/io/atom_tree_diffs' : (True, 999, []),
'core/io/pdb' : (True, 999, []),
'core/io/pose_stream' : (True, 999, []),
'core/io/raw_data' : (False, 999, []),
'core/io/sequence_comparation' : (False, 999, []),
'core/io/serialization' : (False, 999, []),
'core/io/silent' : (False, 999, []),
'core/io/atom_tree_diffs/atom_tree_diff.hh' : (False, 999, []),
'core/io/pdb/file_data.hh' : (False, 999, []),
'core/io/pdb/pdb_dynamic_reader.hh' : (False, 999, []),
'core/io/pdb/pose_io.hh' : (True, 999, []),
'core/io/pose_stream/ExtendedPoseInputStream.hh' : (True, 999, []),
'core/io/pose_stream/MetaPoseInputStream.hh' : (True, 999, []),
'core/io/pose_stream/PDBPoseInputStream.hh' : (True, 999, []),
'core/io/pose_stream/PoseInputStream.hh' : (True, 999, []),
'core/io/pose_stream/PoseOutputStream.hh' : (False, 999, []),
'core/io/pose_stream/SilentFilePoseInputStream.hh' : (True, 999, []),
'core/io/pose_stream/util.hh' : (True, 999, []),
'core/kinematics/AtomPointer.hh' : (True, 999, []),
'core/kinematics/AtomTree.hh' : (False, 999, []),
'core/kinematics/AtomWithDOFChange.hh' : (True, 999, []),
'core/kinematics/CAlpha.hh' : (False, 999, []),
'core/kinematics/DomainMap.hh' : (True, 999, []),
'core/kinematics/Edge.hh' : (True, 999, []),
'core/kinematics/Exceptions.hh' : (True, 999, []),
'core/kinematics/FoldTree.hh' : (True, 999, []),
'core/kinematics/Jump.hh' : (True, 999, []),
'core/kinematics/MoveMap.hh' : (True, 999, []),
'core/kinematics/RT.hh' : (True, 999, []),
'core/kinematics/ResidueCoordinateChangeList.hh' : (True, 999, []),
'core/kinematics/ShortestPathInFoldTree.hh' : (True, 999, []),
'core/kinematics/Stub.hh' : (True, 999, []),
'core/kinematics/all.hh' : (True, 999, []),
'core/kinematics/constants.hh' : (True, 999, []),
'core/kinematics/tree' : (True, 999, []),
'core/kinematics/types.hh' : (True, 999, []),
'core/kinematics/util.hh' : (True, 999, []),
'core/kinematics/visualize.hh' : (True, 999, []),
'core/kinematics/tree/Atom.hh' : (True, 999, []),
'core/kinematics/tree/Atom_.hh' : (True, 999, []),
'core/kinematics/tree/BondedAtom.hh' : (True, 999, []),
'core/kinematics/tree/JumpAtom.hh' : (True, 999, []),
'core/mm/MMBondAngleLibrary.hh' : (True, 999, []),
'core/mm/MMBondAngleResidueTypeParam.hh' : (True, 999, []),
'core/mm/MMBondAngleResidueTypeParamSet.hh' : (True, 999, []),
'core/mm/MMBondAngleScore.hh' : (True, 999, []),
'core/mm/MMTorsionLibrary.hh' : (True, 999, []),
'core/mm/MMTorsionScore.hh' : (True, 999, []),
'core/mm/mmtrie' : (False, 999, []),
'core/optimization/AtomNode.hh' : (True, 999, []),
'core/optimization/AtomTreeMinimizer.hh' : (True, 999, []),
'core/optimization/AtomTreeMultifunc.hh' : (False, 999, []),
'core/optimization/DOF_Node.hh' : (True, 999, []),
'core/optimization/GA_Minimizer.hh' : (True, 999, []),
'core/optimization/LineMinimizer.hh' : (True, 999, []),
'core/optimization/Minimizer.hh' : (True, 999, []),
'core/optimization/MinimizerMap.hh' : (True, 999, []),
'core/optimization/MinimizerOptions.hh' : (True, 999, []),
'core/optimization/Multifunc.hh' : (False, 999, []),
'core/optimization/ParticleSwarmMinimizer.hh' : (True, 999, []),
'core/optimization/SingleResidueMultifunc.hh' : (False, 999, []),
'core/optimization/atom_tree_minimize.hh' : (True, 999, []),
'core/optimization/symmetry' : (False, 999, []),
'core/optimization/types.hh' : (True, 999, []),
'core/options/keys' : (False, 999, []),
'core/pack/all.hh' : (True, 999, []),
'core/pack/annealer' : (True, 999, []),
'core/pack/interaction_graph' : (False, 999, []),
'core/pack/optimizeH.hh' : (True, 999, []),
'core/pack/pack_missing_sidechains.hh' : (True, 999, []),
'core/pack/pack_rotamers.hh' : (True, 999, []),
'core/pack/packer_neighbors.hh' : (True, 999, []),
'core/pack/rotamer_set' : (False, 999, []),
'core/pack/rotamer_trials.hh' : (True, 999, []),
'core/pack/rtmin.hh' : (True, 999, []),
'core/pack/scmin' : (False, 999, []),
'core/pack/task' : (True, 999, []),
'core/pack/types.hh' : (True, 999, []),
'core/pack/annealer/AnnealerFactory.hh' : (True, 999, []),
'core/pack/annealer/DebuggingAnnealer.hh' : (False, 999, []),
'core/pack/annealer/FixbbCoupledRotamerSimAnnealer.hh' : (True, 999, []),
'core/pack/annealer/FixbbSimAnnealer.hh' : (True, 999, []),
'core/pack/annealer/MultiCoolAnnealer.hh' : (True, 999, []),
'core/pack/annealer/RotamerAssigningAnnealer.hh' : (False, 999, []),
'core/pack/annealer/SimAnnealerBase.hh' : (True, 999, []),
'core/pack/rotamer_set/symmetry' : (False, 999, []),
'core/pack/task/IGEdgeReweightContainer.hh' : (True, 999, []),
'core/pack/task/PackerTask.hh' : (True, 999, []),
'core/pack/task/PackerTask_.hh' : (True, 999, []),
'core/pack/task/ResfileReader.hh' : (True, 999, []),
'core/pack/task/RotamerSampleOptions.hh' : (True, 999, []),
'core/pack/task/TaskFactory.hh' : (True, 999, []),
'core/pack/task/operation' : (True, 999, []),
'core/pack/task/operation/NoRepackDisulfides.hh' : (True, 999, []),
'core/pack/task/operation/NoRepackDisulfidesCreator.hh' : (False, 999, []),
'core/pack/task/operation/OperateOnCertainResidues.hh' : (True, 999, []),
'core/pack/task/operation/OperateOnCertainResiduesCreator.hh' : (False, 999, []),
'core/pack/task/operation/OptCysHG.hh' : (True, 999, []),
'core/pack/task/operation/OptCysHGCreator.hh' : (False, 999, []),
'core/pack/task/operation/OptH.hh' : (True, 999, []),
'core/pack/task/operation/OptHCreator.hh' : (False, 999, []),
'core/pack/task/operation/ResFilter.hh' : (True, 999, []),
'core/pack/task/operation/ResFilterCreator.hh' : (False, 999, []),
'core/pack/task/operation/ResFilterCreators.hh' : (False, 999, []),
'core/pack/task/operation/ResFilterFactory.hh' : (True, 999, []),
'core/pack/task/operation/ResFilterRegistrator.hh' : (False, 999, []),
'core/pack/task/operation/ResFilters.hh' : (True, 999, []),
'core/pack/task/operation/ResLvlTaskOperation.hh' : (True, 999, []),
'core/pack/task/operation/ResLvlTaskOperationCreator.hh' : (False, 999, []),
'core/pack/task/operation/ResLvlTaskOperationCreators.hh' : (False, 999, []),
'core/pack/task/operation/ResLvlTaskOperationFactory.hh' : (True, 999, []),
'core/pack/task/operation/ResLvlTaskOperationRegistrator.hh' : (False, 999, []),
'core/pack/task/operation/ResLvlTaskOperations.hh' : (True, 999, []),
'core/pack/task/operation/RestrictToInterface.hh' : (False, 999, []),
'core/pack/task/operation/RestrictToInterfaceCreator.hh' : (False, 999, []),
'core/pack/task/operation/TaskOperation.hh' : (True, 999, []),
'core/pack/task/operation/TaskOperationCreator.hh' : (False, 999, []),
'core/pack/task/operation/TaskOperationCreators.hh' : (False, 999, []),
'core/pack/task/operation/TaskOperationFactory.hh' : (True, 999, []),
'core/pack/task/operation/TaskOperationRegistrator.hh' : (False, 999, []),
'core/pack/task/operation/TaskOperations.hh' : (True, 999, []),
'core/pose/PDBInfo.hh' : (True, 999, []),
'core/pose/PDBPoseMap.hh' : (True, 999, []),
'core/pose/Pose.hh' : (True, 999, []),
'core/pose/annotated_sequence.hh' : (True, 999, []),
'core/pose/datacache' : (True, 999, []),
'core/pose/metrics' : (True, 999, []),
'core/pose/signals' : (True, 999, []),
'core/pose/util.hh' : (True, 999, []),
'core/pose/datacache/CacheableDataType.hh' : (True, 999, []),
'core/pose/datacache/CacheableObserver.hh' : (True, 999, []),
'core/pose/datacache/CacheableObserverType.hh' : (True, 999, []),
'core/pose/datacache/ObserverCache.hh' : (True, 999, []),
'core/pose/metrics/CalculatorFactory.hh' : (True, 999, []),
'core/pose/metrics/PoseMetricCalculatorBase.hh' : (False, 999, []),
'core/pose/metrics/PoseMetricContainer.hh' : (True, 999, []),
'core/pose/signals/ConformationEvent.hh' : (True, 999, []),
'core/pose/signals/DestructionEvent.hh' : (True, 999, []),
'core/pose/signals/EnergyEvent.hh' : (True, 999, []),
'core/pose/signals/GeneralEvent.hh' : (True, 999, []),
'core/scoring/ScoreFunction.hh' : (True, 100, []),
'core/scoring/LREnergyContainer.hh' : (True, 800, []),
'core/scoring/AtomVDW.hh' : (True, 999, []),
'core/scoring/ContextGraph.hh' : (True, 999, []),
'core/scoring/ContextGraphFactory.hh' : (True, 999, []),
'core/scoring/ContextGraphTypes.hh' : (True, 999, []),
'core/scoring/DenseEnergyContainer.hh' : (True, 999, []),
'core/scoring/Energies.hh' : (True, 999, []),
'core/scoring/EnergiesCacheableDataType.hh' : (True, 999, []),
'core/scoring/EnergyGraph.hh' : (False, 999, []),
'core/scoring/EnergyMap.hh' : (True, 999, []),
'core/scoring/EnvPairPotential.hh' : (True, 999, []),
'core/scoring/GenBornPotential.hh' : (True, 999, []),
'core/scoring/InterchainPotential.hh' : (True, 999, []),
'core/scoring/Interface' : (False, 999, []),
'core/scoring/MembranePotential.hh' : (True, 999, []),
'core/scoring/MembraneTopology.hh' : (True, 999, []),
'core/scoring/NV' : (False, 999, []),
'core/scoring/NeighborList.hh' : (True, 999, []),
'core/scoring/NeighborList.tmpl.hh' : (False, 999, []),
'core/scoring/OmegaTether.hh' : (True, 999, []),
'core/scoring/OneToAllEnergyContainer.hh' : (False, 999, []),
'core/scoring/P_AA.hh' : (True, 999, []),
'core/scoring/PairEPotential.hh' : (True, 999, []),
'core/scoring/ProteinTorsion.hh' : (True, 999, []),
'core/scoring/Ramachandran.hh' : (True, 999, []),
'core/scoring/Ramachandran2B.hh' : (True, 999, []),
'core/scoring/ResidualDipolarCoupling.hh' : (True, 999, []),
'core/scoring/ResidualDipolarCoupling_Rohl.hh' : (False, 999, []),
'core/scoring/SS_Info.hh' : (True, 999, []),
'core/scoring/ScoreFunctionFactory.hh' : (True, 999, []),
'core/scoring/ScoreFunctionInfo.hh' : (True, 999, []),
'core/scoring/ScoreFunctionParameter.hh' : (True, 999, []),
'core/scoring/ScoreFunctionVariant.hh' : (True, 999, []),
'core/scoring/ScoreType.hh' : (True, 999, []),
'core/scoring/ScoreTypeManager.hh' : (True, 999, []),
'core/scoring/ScoringManager.hh' : (True, 999, []),
'core/scoring/SecondaryStructurePotential.hh' : (True, 999, []),
'core/scoring/SecondaryStructureWeights.hh' : (True, 999, []),
'core/scoring/SurfacePotential.hh' : (True, 999, []),
'core/scoring/TenANeighborGraph.hh' : (False, 999, []),
'core/scoring/TwelveANeighborGraph.hh' : (False, 999, []),
'core/scoring/UnfoldedStatePotential.hh' : (True, 999, []),
'core/scoring/WaterAdductHBondPotential.hh' : (True, 999, []),
'core/scoring/carbon_hbonds' : (False, 999, []),
'core/scoring/constants.hh' : (True, 999, []),
'core/scoring/constraints' : (True, 999, []),
'core/scoring/custom_pair_distance' : (False, 999, []),
'core/scoring/disulfides' : (False, 999, []),
'core/scoring/dna' : (True, 999, []),
'core/scoring/dssp' : (False, 999, []),
'core/scoring/dunbrack' : (False, 999, []),
'core/scoring/electron_density' : (True, 999, []),
'core/scoring/etable' : (False, 999, []),
'core/scoring/geometric_solvation' : (False, 999, []),
'core/scoring/hackaro' : (False, 999, []),
'core/scoring/hackelec' : (False, 999, []),
'core/scoring/hbonds' : (True, 999, []),
'core/scoring/interpolation_util.hh' : (True, 999, []),
'core/scoring/memb_etable' : (False, 999, []),
'core/scoring/methods' : (True, 999, []),
'core/scoring/orbitals' : (False, 999, []),
'core/scoring/packing' : (False, 999, []),
'core/scoring/packstat' : (False, 999, []),
'core/scoring/rms_util.hh' : (True, 999, []),
'core/scoring/rna' : (False, 999, []),
'core/scoring/sasa.hh' : (True, 999, []),
'core/scoring/saxs' : (False, 999, []),
'core/scoring/symE' : (False, 999, []),
'core/scoring/symmetry' : (False, 999, []),
'core/scoring/trie' : (True, 999, []),
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'utility/assert.hh' : (False, 999, []),
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'utility/boinc' : (False, 999, []),
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'utility/signals' : (False, 999, []),
'utility/sort_predicates.hh' : (False, 999, []),
'utility/sql_database' : (False, 999, []),
'utility/string_util.hh' : (True, 999, []),
'utility/tag' : (True, 999, []),
'utility/tools' : (False, 999, []),
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'utility/vectorL_bool.hh' : (False, 999, []),
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}
