Deprecated API

Contents

• Interfaces
• Classes
• Fields
• Methods
• Constructors

Deprecated Interfaces

Interface	Description
edu.duke.cs.osprey.gmec.GMECConfEnergyCalculator

Deprecated Classes

Class	Description
edu.duke.cs.osprey.control.ConfPrinter
edu.duke.cs.osprey.control.EnvironmentVars
edu.duke.cs.osprey.control.KStarCalculator
edu.duke.cs.osprey.ematrix.SimpleEnergyCalculator
edu.duke.cs.osprey.ematrix.SimpleEnergyCalculator.Cuda
edu.duke.cs.osprey.ematrix.SimpleEnergyMatrixCalculator
edu.duke.cs.osprey.ematrix.SimpleEnergyMatrixCalculator.Cuda
edu.duke.cs.osprey.energy.compiled.ConfEnergyCalculatorAdapter
edu.duke.cs.osprey.energy.FFInterGen
edu.duke.cs.osprey.energy.forcefield.ForcefieldInteractions
edu.duke.cs.osprey.gmec.MinimizingConfEnergyCalculator
edu.duke.cs.osprey.kstar.pfunc.ParallelConfPartitionFunction
edu.duke.cs.osprey.kstar.pfunc.PFFactory
edu.duke.cs.osprey.lute.UniformConfSampler

Deprecated Fields

Field	Description
edu.duke.cs.osprey.energy.forcefield.ForcefieldParams.shellDistCutoff

Deprecated Methods

Method	Description
edu.duke.cs.osprey.confspace.Strand.Builder.setResidues(int, int)
edu.duke.cs.osprey.confspace.Strand.Builder.setResidues(ResidueTermini)
edu.duke.cs.osprey.confspace.Strand.Flexibility.get(int)
edu.duke.cs.osprey.control.ConfigFileParser.loadData()
edu.duke.cs.osprey.energy.EnergyCalculator.Builder.addTemplates(Consumer<AtomConnectivity.Builder>)
edu.duke.cs.osprey.gpu.cuda.kernels.CCDKernelCuda.init(MoleculeModifierAndScorer)
edu.duke.cs.osprey.restypes.ResidueTemplateLibrary.Builder.addMoleculeForWildTypeRotamers(Molecule)
edu.duke.cs.osprey.tools.Protractor.getHalfAngleSinCos(double, double)

Deprecated Constructors

Constructor	Description
edu.duke.cs.osprey.astar.conf.RCs(SimpleConfSpace)
edu.duke.cs.osprey.astar.conf.RCs(SimpleConfSpace, BiPredicate<SimpleConfSpace.Position, SimpleConfSpace.ResidueConf>)
edu.duke.cs.osprey.dof.ResidueTypeDOF(ResidueTemplateLibrary, Residue)
edu.duke.cs.osprey.dof.ResidueTypeDOF(ResidueTemplateLibrary, Residue, boolean)
edu.duke.cs.osprey.ematrix.SimplerEnergyMatrixCalculator.Builder(SimpleConfSpace, EnergyCalculator)
edu.duke.cs.osprey.energy.EnergyCalculator.Builder(ResidueTemplateLibrary, ForcefieldParams)
edu.duke.cs.osprey.energy.EnergyCalculator.Builder(Residues, ForcefieldParams)
edu.duke.cs.osprey.minimization.MoleculeModifierAndScorer(MoleculeObjectiveFunction)
edu.duke.cs.osprey.minimization.MoleculeObjectiveFunction(MoleculeModifierAndScorer)