modeler → core Relation

File in src/protocols/stepwise/legacy/modeler	Includes file in src/core
rna / RNA_AnalyticLoopCloser.cc	kinematics / tree / Atom.hh
rna / RNA_AnalyticLoopCloser.cc	id / AtomID.hh
rna / RNA_AnalyticLoopCloser.cc	kinematics / AtomTree.hh
rna / RNA_AnalyticLoopCloser.cc	id / DOF_ID.hh
rna / RNA_AnalyticLoopCloser.cc	kinematics / FoldTree.hh
rna / RNA_AnalyticLoopCloser.cc	id / NamedAtomID.hh
rna / RNA_AnalyticLoopCloser.cc	pose / Pose.hh
rna / RNA_AnalyticLoopCloser.cc	conformation / Residue.hh
rna / RNA_AnalyticLoopCloser.cc	chemical / ResidueType.hh
rna / RNA_AnalyticLoopCloser.cc	chemical / rna / RNA_Info.hh
rna / RNA_AnalyticLoopCloser.cc	scoring / ScoreFunction.hh
rna / RNA_AnalyticLoopCloser.cc	types.hh
rna / RNA_AnalyticLoopCloser.cc	chemical / VariantType.hh
rna / RNA_AnalyticLoopCloser.hh	kinematics / tree / Atom.fwd.hh
rna / RNA_AnalyticLoopCloser.hh	id / DOF_ID.fwd.hh
rna / RNA_AnalyticLoopCloser.hh	id / NamedAtomID.hh
rna / RNA_AnalyticLoopCloser.hh	pose / Pose.fwd.hh
rna / RNA_AnalyticLoopCloser.hh	scoring / ScoreFunction.hh
rna / RNA_AnalyticLoopCloser.hh	types.hh
protein / StepWiseProteinMinimizer.cc	optimization / AtomTreeMinimizer.hh
protein / StepWiseProteinMinimizer.cc	optimization / CartesianMinimizer.hh
protein / StepWiseProteinMinimizer.cc	conformation / Conformation.hh
protein / StepWiseProteinMinimizer.cc	scoring / constraints / ConstraintSet.hh
protein / StepWiseProteinMinimizer.cc	scoring / Energies.hh
protein / StepWiseProteinMinimizer.cc	scoring / EnergyGraph.hh
protein / StepWiseProteinMinimizer.cc	optimization / MinimizerOptions.hh
protein / StepWiseProteinMinimizer.cc	kinematics / MoveMap.hh
protein / StepWiseProteinMinimizer.cc	pose / Pose.hh
protein / StepWiseProteinMinimizer.cc	scoring / ScoreFunction.hh
protein / StepWiseProteinMinimizer.cc	scoring / ScoreFunctionFactory.hh
protein / StepWiseProteinMinimizer.cc	id / TorsionID.hh
protein / StepWiseProteinMinimizer.cc	scoring / constraints / util.hh
protein / StepWiseProteinMinimizer.cc	pose / util.hh
protein / StepWiseProteinMinimizer.cc	conformation / util.hh
protein / StepWiseProteinMinimizer.hh	kinematics / MoveMap.fwd.hh
protein / StepWiseProteinMinimizer.hh	pose / Pose.hh
protein / StepWiseProteinMinimizer.hh	scoring / ScoreFunction.fwd.hh
protein / StepWiseProteinMinimizer.hh	types.hh
protein / StepWiseProteinPoseSetup.cc	pose / annotated_sequence.hh
protein / StepWiseProteinPoseSetup.cc	scoring / constraints / AtomPairConstraint.hh
protein / StepWiseProteinPoseSetup.cc	chemical / ChemicalManager.hh
protein / StepWiseProteinPoseSetup.cc	conformation / Conformation.hh
protein / StepWiseProteinPoseSetup.cc	scoring / constraints / ConstraintIO.hh
protein / StepWiseProteinPoseSetup.cc	scoring / constraints / ConstraintSet.hh
protein / StepWiseProteinPoseSetup.cc	io / raw_data / DisulfideFile.hh
protein / StepWiseProteinPoseSetup.cc	scoring / func / FadeFunc.hh
protein / StepWiseProteinPoseSetup.cc	kinematics / FoldTree.hh
protein / StepWiseProteinPoseSetup.cc	pose / full_model_info / FullModelInfo.hh
protein / StepWiseProteinPoseSetup.cc	pose / full_model_info / FullModelParameters.hh
protein / StepWiseProteinPoseSetup.cc	scoring / func / Func.fwd.hh
protein / StepWiseProteinPoseSetup.cc	import_pose / import_pose.hh
protein / StepWiseProteinPoseSetup.cc	pose / Pose.hh
protein / StepWiseProteinPoseSetup.cc	conformation / Residue.hh
protein / StepWiseProteinPoseSetup.cc	conformation / ResidueFactory.hh
protein / StepWiseProteinPoseSetup.cc	chemical / ResidueType.hh
protein / StepWiseProteinPoseSetup.cc	scoring / rms_util.hh
protein / StepWiseProteinPoseSetup.cc	scoring / ScoreFunction.hh
protein / StepWiseProteinPoseSetup.cc	scoring / ScoreType.hh
protein / StepWiseProteinPoseSetup.cc	pose / subpose_manipulation_util.hh
protein / StepWiseProteinPoseSetup.cc	id / TorsionID.hh
protein / StepWiseProteinPoseSetup.cc	types.hh
protein / StepWiseProteinPoseSetup.cc	chemical / rna / util.hh
protein / StepWiseProteinPoseSetup.cc	pose / rna / util.hh
protein / StepWiseProteinPoseSetup.cc	pose / variant_util.hh
protein / StepWiseProteinPoseSetup.cc	chemical / VariantType.hh
protein / StepWiseProteinPoseSetup.hh	id / AtomID.fwd.hh
protein / StepWiseProteinPoseSetup.hh	id / AtomID_Map.hh
protein / StepWiseProteinPoseSetup.hh	scoring / constraints / ConstraintSet.fwd.hh
protein / StepWiseProteinPoseSetup.hh	pose / Pose.fwd.hh
protein / StepWiseProteinPoseSetup.hh	conformation / Residue.fwd.hh
protein / StepWiseProteinPoseSetup.hh	chemical / ResidueType.fwd.hh
protein / StepWiseProteinPoseSetup.hh	chemical / ResidueTypeSet.fwd.hh
protein / StepWiseProteinPoseSetup.hh	types.hh
rna / StepWiseRNA_Clusterer.cc	io / silent / BinarySilentStruct.hh
rna / StepWiseRNA_Clusterer.cc	chemical / ChemicalManager.hh
rna / StepWiseRNA_Clusterer.cc	scoring / Energies.hh
rna / StepWiseRNA_Clusterer.cc	pose / extra_pose_info_util.hh
rna / StepWiseRNA_Clusterer.cc	pose / Pose.hh
rna / StepWiseRNA_Clusterer.cc	import_pose / pose_stream / PoseInputStream.fwd.hh
rna / StepWiseRNA_Clusterer.cc	import_pose / pose_stream / PoseInputStream.hh
rna / StepWiseRNA_Clusterer.cc	chemical / ResidueTypeSet.hh
rna / StepWiseRNA_Clusterer.cc	scoring / rms_util.hh
rna / StepWiseRNA_Clusterer.cc	scoring / rms_util.tmpl.hh
rna / StepWiseRNA_Clusterer.cc	scoring / ScoreFunction.hh
rna / StepWiseRNA_Clusterer.cc	scoring / ScoreFunctionFactory.hh
rna / StepWiseRNA_Clusterer.cc	io / silent / SilentFileData.fwd.hh
rna / StepWiseRNA_Clusterer.cc	io / silent / SilentFileData.hh
rna / StepWiseRNA_Clusterer.cc	io / silent / SilentFileOptions.hh
rna / StepWiseRNA_Clusterer.cc	import_pose / pose_stream / SilentFilePoseInputStream.hh
rna / StepWiseRNA_Clusterer.cc	io / silent / SilentStruct.hh
rna / StepWiseRNA_Clusterer.cc	types.hh
rna / StepWiseRNA_Clusterer.cc	chemical / rna / util.hh
rna / StepWiseRNA_Clusterer.cc	pose / rna / util.hh
rna / StepWiseRNA_Clusterer.cc	pose / util.hh
rna / StepWiseRNA_Clusterer.hh	pose / Pose.fwd.hh
rna / StepWiseRNA_Clusterer.hh	pose / Pose.hh
rna / StepWiseRNA_Clusterer.hh	chemical / ResidueTypeSet.hh
rna / StepWiseRNA_Clusterer.hh	scoring / ScoreFunction.fwd.hh
rna / StepWiseRNA_Clusterer.hh	io / silent / SilentFileData.fwd.hh
rna / StepWiseRNA_Clusterer.hh	import_pose / pose_stream / SilentFilePoseInputStream.fwd.hh
rna / StepWiseRNA_Clusterer.hh	io / silent / SilentStruct.fwd.hh
rna / StepWiseRNA_Clusterer.hh	types.hh
rna / StepWiseRNA_Minimizer.cc	id / AtomID.hh
rna / StepWiseRNA_Minimizer.cc	optimization / AtomTreeMinimizer.hh
rna / StepWiseRNA_Minimizer.cc	chemical / AtomType.hh
rna / StepWiseRNA_Minimizer.cc	io / silent / BinarySilentStruct.hh
rna / StepWiseRNA_Minimizer.cc	optimization / CartesianMinimizer.hh
rna / StepWiseRNA_Minimizer.cc	conformation / Conformation.hh
rna / StepWiseRNA_Minimizer.cc	scoring / Energies.hh
rna / StepWiseRNA_Minimizer.cc	scoring / EnergyGraph.hh
rna / StepWiseRNA_Minimizer.cc	scoring / EnergyMap.hh
rna / StepWiseRNA_Minimizer.cc	optimization / MinimizerOptions.hh
rna / StepWiseRNA_Minimizer.cc	pose / Pose.hh
rna / StepWiseRNA_Minimizer.cc	scoring / rms_util.tmpl.hh
rna / StepWiseRNA_Minimizer.cc	scoring / rna / RNA_TorsionPotential.hh
rna / StepWiseRNA_Minimizer.cc	scoring / ScoreFunction.hh
rna / StepWiseRNA_Minimizer.cc	scoring / ScoreFunctionFactory.hh
rna / StepWiseRNA_Minimizer.cc	scoring / ScoreType.hh
rna / StepWiseRNA_Minimizer.cc	io / silent / SilentFileData.fwd.hh
rna / StepWiseRNA_Minimizer.cc	io / silent / SilentFileData.hh
rna / StepWiseRNA_Minimizer.cc	id / TorsionID.hh
rna / StepWiseRNA_Minimizer.cc	types.hh
rna / StepWiseRNA_Minimizer.cc	chemical / util.hh
rna / StepWiseRNA_Minimizer.cc	chemical / rna / util.hh
rna / StepWiseRNA_Minimizer.cc	pose / util.hh
rna / StepWiseRNA_Minimizer.cc	chemical / VariantType.hh
rna / StepWiseRNA_PoseSelection.cc	pose / extra_pose_info_util.hh
rna / StepWiseRNA_PoseSelection.cc	pose / Pose.hh
rna / StepWiseRNA_PoseSelection.cc	scoring / ScoreFunction.hh
rna / StepWiseRNA_PoseSelection.cc	scoring / ScoreType.hh
rna / StepWiseRNA_PoseSelection.cc	pose / rna / util.hh
rna / StepWiseRNA_PoseSelection.cc	pose / variant_util.hh
rna / StepWiseRNA_PoseSelection.hh	pose / Pose.fwd.hh
rna / StepWiseRNA_PoseSelection.hh	types.hh
rna / StepWiseRNA_PoseSetup.cc	pose / annotated_sequence.hh
rna / StepWiseRNA_PoseSetup.cc	scoring / constraints / AtomPairConstraint.hh
rna / StepWiseRNA_PoseSetup.cc	io / silent / BinarySilentStruct.hh
rna / StepWiseRNA_PoseSetup.cc	chemical / ChemicalManager.hh
rna / StepWiseRNA_PoseSetup.cc	scoring / constraints / ConstraintSet.hh
rna / StepWiseRNA_PoseSetup.cc	scoring / func / FadeFunc.hh
rna / StepWiseRNA_PoseSetup.cc	kinematics / FoldTree.hh
rna / StepWiseRNA_PoseSetup.cc	pose / full_model_info / FullModelInfo.hh
rna / StepWiseRNA_PoseSetup.cc	pose / full_model_info / FullModelParameters.hh
rna / StepWiseRNA_PoseSetup.cc	scoring / func / Func.fwd.hh
rna / StepWiseRNA_PoseSetup.cc	import_pose / import_pose.hh
rna / StepWiseRNA_PoseSetup.cc	pose / PDBInfo.hh
rna / StepWiseRNA_PoseSetup.cc	pose / Pose.hh
rna / StepWiseRNA_PoseSetup.cc	conformation / Residue.hh
rna / StepWiseRNA_PoseSetup.cc	conformation / ResidueFactory.hh
rna / StepWiseRNA_PoseSetup.cc	chemical / ResidueType.hh
rna / StepWiseRNA_PoseSetup.cc	chemical / ResidueTypeSet.hh
rna / StepWiseRNA_PoseSetup.cc	scoring / rms_util.tmpl.hh
rna / StepWiseRNA_PoseSetup.cc	id / TorsionID.hh
rna / StepWiseRNA_PoseSetup.cc	types.hh
rna / StepWiseRNA_PoseSetup.cc	pose / rna / util.hh
rna / StepWiseRNA_PoseSetup.cc	pose / copydofs / util.hh
rna / StepWiseRNA_PoseSetup.cc	pose / full_model_info / util.hh
rna / StepWiseRNA_PoseSetup.cc	chemical / rna / util.hh
rna / StepWiseRNA_PoseSetup.cc	chemical / util.hh
rna / StepWiseRNA_PoseSetup.cc	pose / variant_util.hh
rna / StepWiseRNA_PoseSetup.cc	chemical / VariantType.hh
rna / StepWiseRNA_PoseSetup.hh	pose / Pose.fwd.hh
rna / StepWiseRNA_PoseSetup.hh	chemical / ResidueTypeSet.fwd.hh
rna / StepWiseRNA_PoseSetup.hh	types.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	chemical / AA.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	kinematics / tree / Atom.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	id / AtomID.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	id / AtomID_Map.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	optimization / AtomTreeMinimizer.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / func / CharmmPeriodicFunc.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	chemical / ChemicalManager.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	conformation / Conformation.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / constraints / DihedralConstraint.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	id / DOF_ID.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / Energies.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / EnergyGraph.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / EnergyMap.fwd.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / EnergyMap.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	kinematics / FoldTree.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	import_pose / import_pose.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	init / init.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	optimization / MinimizerOptions.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	pose / MiniPose.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	kinematics / MoveMap.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	pose / PDBInfo.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	pose / Pose.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	conformation / Residue.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	conformation / ResidueFactory.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	conformation / ResidueMatcher.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	chemical / ResidueTypeSet.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / rms_util.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	chemical / rna / RNA_FittedTorsionInfo.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / ScoreFunction.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / ScoreFunctionFactory.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	scoring / ScoringManager.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	sequence / Sequence.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	io / silent / SilentFileData.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	import_pose / pose_stream / SilentFilePoseInputStream.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	io / silent / SilentStruct.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	types.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	io / silent / util.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	pose / rna / util.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	pose / util.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	sequence / util.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	chemical / rna / util.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	chemical / util.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.cc	chemical / VariantType.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.hh	pose / Pose.fwd.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.hh	scoring / ScoreFunction.fwd.hh
rna / StepWiseRNA_PoseSetupFromCommandLine.hh	types.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	scoring / constraints / AtomPairConstraint.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	chemical / ChemicalManager.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	scoring / constraints / ConstraintSet.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	scoring / func / FadeFunc.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	kinematics / FoldTree.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	pose / Pose.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	conformation / Residue.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	chemical / ResidueTypeFinder.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	chemical / ResidueTypeSet.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	scoring / rms_util.tmpl.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	id / TorsionID.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	types.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	pose / rna / util.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	pose / util.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	chemical / rna / util.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	chemical / util.hh
rna / StepWiseRNA_WorkingParametersSetup.cc	chemical / VariantType.hh
rna / StepWiseRNA_WorkingParametersSetup.hh	pose / Pose.fwd.hh
rna / StepWiseRNA_WorkingParametersSetup.hh	chemical / ResidueTypeSet.fwd.hh
rna / StepWiseRNA_WorkingParametersSetup.hh	types.hh
protein / util.cc	id / AtomID.hh
protein / util.cc	id / AtomID_Map.hh
protein / util.cc	io / silent / BinarySilentStruct.hh
rna / util.cc	chemical / ChemicalManager.hh
protein / util.cc	fragment / Frame.hh
protein / util.cc	id / NamedAtomID.hh
rna / util.cc	pose / Pose.hh
protein / util.cc	pose / Pose.hh
rna / util.cc	conformation / Residue.hh
protein / util.cc	scoring / rms_util.hh
rna / util.cc	chemical / rna / RNA_FittedTorsionInfo.hh
protein / util.cc	io / silent / SilentFileData.hh
protein / util.cc	io / silent / SilentFileOptions.hh
protein / util.cc	types.hh
rna / util.cc	sequence / util.hh
rna / util.cc	pose / rna / util.hh
rna / util.cc	chemical / rna / util.hh
protein / util.cc	pose / util.hh
protein / util.cc	pose / full_model_info / util.hh
protein / util.cc	io / silent / util.hh
protein / util.hh	id / AtomID.fwd.hh
protein / util.hh	id / AtomID_Map.fwd.hh
rna / util.hh	kinematics / FoldTree.fwd.hh
rna / util.hh	pose / Pose.fwd.hh
protein / util.hh	pose / Pose.fwd.hh
protein / util.hh	io / silent / SilentFileData.hh
rna / util.hh	types.hh
protein / util.hh	types.hh