meshi.symmetryComplex.molecularImageElements
Class ImageAtomList

java.lang.Object
  java.util.AbstractCollection<E>
      java.util.AbstractList<E>
          java.util.ArrayList<Atom>
              meshi.molecularElements.atoms.AtomList
                  meshi.symmetryComplex.molecularImageElements.ImageAtomList

All Implemented Interfaces:

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

public class ImageAtomList
extends AtomList

A list of ImageAtoms

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class meshi.molecularElements.atoms.AtomList

AtomList.AcceptChainFilter, AtomList.BackboneFilter, AtomList.IsAtom, AtomList.IsDefrostedFilter, AtomList.IsFrozenFilter, AtomList.NonHydrogen, AtomList.RejectChainFilter

Field Summary

protected Transformation

transformation

Fields inherited from class java.util.AbstractList

modCount

Constructor Summary

ImageAtomList(AtomList sourceAtomList, Transformation transformation)

ImageAtomList(ImageChain residues, Transformation transformation)

ImageAtomList(Residue residue, Transformation transformation)

Method Summary

Methods inherited from class meshi.molecularElements.atoms.AtomList

add, assertSingleResidue, atomAt, backbone, CAFilter, CAnoImageFilter, checkSingleResidue, comment, defrost, defrostedAtoms, filter, freeze, freeze, frozenAtoms, frozenAtomsExist, fullOccupancyFilter, getChainAtoms, getRms, getSourceAtoms, includesNowhereAtoms, molecularSystem, moveCMtoOrigin, noOXTFilter, print, print, radius, radius2, rms, sameAtoms, setComment, setMolecularSystem, setResidue, somewhere, sortable, sourceFile, splitToChains, toArrayOfAtoms, toString, whereIs

Methods inherited from class java.util.ArrayList

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

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

transformation

protected Transformation transformation

Constructor Detail

ImageAtomList

public ImageAtomList(AtomList sourceAtomList,
                     Transformation transformation)

ImageAtomList

public ImageAtomList(Residue residue,
                     Transformation transformation)

ImageAtomList

public ImageAtomList(ImageChain residues,
                     Transformation transformation)