Package edu.duke.cs.osprey.confspace

Class StrandFlex

java.lang.Object

edu.duke.cs.osprey.confspace.StrandFlex

All Implemented Interfaces:

Serializable

Direct Known Subclasses:

CATSStrandFlex, DEEPerStrandFlex, StrandFlex.None, StrandFlex.TranslateRotate

public abstract class StrandFlex
extends Object
implements Serializable

See Also:

• Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	StrandFlex.None
static class	StrandFlex.TranslateRotate

Constructor Summary

Constructors

Constructor	Description
StrandFlex()

Method Summary

Modifier and Type	Method	Description
int	countDofs(Strand strand)
protected HashMap<String,double[]>	defaultBackboneVoxel(Strand strand)
SimpleConfSpace.DofTypes	getDofTypes()
abstract ArrayList<HashMap<String,double[]>>	listBackboneVoxels(SimpleConfSpace.Position pos)
abstract ObjectiveFunction.DofBounds	makeBounds(Strand strand)
abstract List<? extends DegreeOfFreedom>	makeDofs(Strand strand, Molecule mol)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

StrandFlex

public StrandFlex()

Method Details

makeDofs

public abstract List<? extends DegreeOfFreedom> makeDofs(Strand strand,
 Molecule mol)

makeBounds

public abstract ObjectiveFunction.DofBounds makeBounds(Strand strand)

countDofs

public int countDofs(Strand strand)

listBackboneVoxels

public abstract ArrayList<HashMap<String,double[]>> listBackboneVoxels(SimpleConfSpace.Position pos)

getDofTypes

public SimpleConfSpace.DofTypes getDofTypes()

defaultBackboneVoxel

protected HashMap<String,double[]> defaultBackboneVoxel(Strand strand)