meshi.geometry
Class QuickAndDirtyTorsionList

java.lang.Object
  java.util.AbstractCollection<E>
      java.util.AbstractList<E>
          java.util.ArrayList<Torsion>
              meshi.geometry.TorsionList
                  meshi.geometry.QuickAndDirtyTorsionList

All Implemented Interfaces:

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

public class QuickAndDirtyTorsionList
extends TorsionList

A list of quick and dirty torsion angles. These angle may use approximate torsion calculations if ArcCos.useFastArcCos() is called.

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class meshi.geometry.TorsionList

TorsionList.FilterChi1, TorsionList.FilterChi2, TorsionList.FilterChi3, TorsionList.FilterChi4, TorsionList.FilterOOP, TorsionList.FilterPhi, TorsionList.FilterPsi, TorsionList.FilterSideChain

Field Summary

Fields inherited from class java.util.AbstractList

modCount

Constructor Summary

QuickAndDirtyTorsionList(AngleList angles, DistanceMatrix distanceMatrix)

Method Summary

Torsion

getTorsion(Angle angle1, Angle angle2, DistanceMatrix distanceMatrix)

Methods inherited from class meshi.geometry.TorsionList

atomList, chi1Filter, createQuickAndDirtyTorsionList, createTorsionList, equivalentExists, filter, filterEquivalents, freeze, isChi1, isChi2, isChi3, isChi4, isChi5, isCimp, isNamed, isNimp, isOmega, isOOP, isPhi, isPsi, namedFilter, torsionAt, update

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

Constructor Detail

QuickAndDirtyTorsionList

public QuickAndDirtyTorsionList(AngleList angles,
                                DistanceMatrix distanceMatrix)

Method Detail

getTorsion

public Torsion getTorsion(Angle angle1,
                          Angle angle2,
                          DistanceMatrix distanceMatrix)

Overrides:

getTorsion in class TorsionList