pla.data
Class Occurrence

java.lang.Object
  pla.data.NamedThing
      pla.data.NodeThing
          pla.data.Occurrence

All Implemented Interfaces:

Comparable

public class Occurrence
extends NodeThing

Encapsulating an Occurrence.

Occurrences are ordered in a special way. As complexes are modeled using 3 characters '(', ':', and ')' we are ignoring these when sorting, so that for example, "(Ikb:(Nfkb1:Rela))-CLc" would appear between "Ifnggene-on-NUc" and "Ikb-degraded-CLc".

Author:

linda

Constructor Summary

Occurrence(Occurrence o)
Construct an Occurrence as a clone of a given one.

Occurrence(String name, int ID)
Construct an Occurrence.

Occurrence(String name, int ID, String longName)
Construct an Occurrence with an associated long name.

Method Summary

int	compareTo(Object o)
boolean	equals(Object o)

Methods inherited from class pla.data.NodeThing

getID, getLongName, hashCode, isSelected, isShowLongName, setSelected, setShowLongName, toString

Methods inherited from class pla.data.NamedThing

getName

Methods inherited from class java.lang.Object

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

Constructor Detail

Occurrence

public Occurrence(String name,
                  int ID)

Construct an Occurrence. The given name must be non-null and non-empty (after trimming), otherwise constructor throws a RuntimeException. Uses the name also as the long name since it cannot be null.

Parameters:

name - String containing name

ID - numerical ID (used for identification)

Occurrence

public Occurrence(String name,
                  int ID,
                  String longName)

Construct an Occurrence with an associated long name. The given name must be non-null and non-empty (after trimming), otherwise constructor throws a RuntimeException.

Parameters:

name - String containing name

ID - numerical ID (used for identification)

longName - String containing a long name

Occurrence

public Occurrence(Occurrence o)

Construct an Occurrence as a clone of a given one.

Parameters:

o - Occurrence to be cloned

Method Detail

compareTo

public int compareTo(Object o)

Specified by:

compareTo in interface Comparable

Overrides:

compareTo in class NodeThing

equals

public boolean equals(Object o)

Overrides:

equals in class NodeThing