meshi.geometry
Class AngleList

java.lang.Object
  java.util.AbstractCollection<E>
      java.util.AbstractList<E>
          java.util.ArrayList<Angle>
              meshi.geometry.AngleList

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable, java.lang.Iterable<Angle>, java.util.Collection<Angle>, java.util.List<Angle>, java.util.RandomAccess, Updateable

Direct Known Subclasses:

QuickAndDirtyAngleList

public class AngleList
extends java.util.ArrayList<Angle>
implements Updateable

See Also:

Serialized Form

Field Summary

private int

numberOfUpdates

Fields inherited from class java.util.AbstractList

modCount

Constructor Summary

AngleList()

AngleList(AtomPairList bonds, DistanceMatrix distanceMatrix)

Method Summary

Angle	angleAt(int i)
AtomList	atomList()
Angle	getAngle(AtomPair atomPair1, AtomPair atomPair2, DistanceMatrix distanceMatrix)
static AngleList	getCaAngles(Protein protein, DistanceMatrix distanceMatrix)
boolean	isNamed(Angle angle)
AngleList	namedFilter() Returns a sub-list containing angles that have a known name
void	update(int numberOfUpdates)

Methods inherited from class java.util.ArrayList

add, add, addAll, addAll, clear, clone, contains, ensureCapacity, get, indexOf, isEmpty, lastIndexOf, remove, remove, removeRange, set, size, toArray, toArray, trimToSize

Methods inherited from class java.util.AbstractList

equals, hashCode, iterator, listIterator, listIterator, subList

Methods inherited from class java.util.AbstractCollection

containsAll, removeAll, retainAll, toString

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.util.List

containsAll, equals, hashCode, iterator, listIterator, listIterator, removeAll, retainAll, subList

Field Detail

numberOfUpdates

private int numberOfUpdates

Constructor Detail

AngleList

public AngleList()

AngleList

public AngleList(AtomPairList bonds,
                 DistanceMatrix distanceMatrix)

Method Detail

update

public void update(int numberOfUpdates)
            throws UpdateableException

Specified by:

update in interface Updateable

Throws:

UpdateableException

angleAt

public Angle angleAt(int i)

namedFilter

public AngleList namedFilter()

Returns a sub-list containing angles that have a known name

isNamed

public boolean isNamed(Angle angle)

atomList

public AtomList atomList()

getCaAngles

public static AngleList getCaAngles(Protein protein,
                                    DistanceMatrix distanceMatrix)

getAngle

public Angle getAngle(AtomPair atomPair1,
                      AtomPair atomPair2,
                      DistanceMatrix distanceMatrix)