Package pal.misc

Class Identifier

java.lang.Object
pal.misc.Identifier
All Implemented Interfaces:
Serializable, Nameable, Comparable

public class Identifier extends Object implements Serializable, Comparable, Nameable
An identifier for some sampled data. This will most often be for example, the accession number of a DNA sequence, or the taxonomic name that the sequence represents, et cetera.
Version:
$Id: Identifier.java,v 1.9 2002/11/25 05:40:54 matt Exp $
Author:
Alexei Drummond
See Also:
  • Field Details

  • Constructor Details

    • Identifier

      public Identifier()
    • Identifier

      public Identifier(String name)
  • Method Details

    • toString

      public String toString()
      Overrides:
      toString in class Object
    • compareTo

      public int compareTo(Object c)
      Description copied from interface: Comparable
      Returns a number representing the ordering relationship that the object has with the given object. A negative number indicates that the object is "smaller" than the parameter, a positive number means it is "larger" and zero indicates that the objects are equal.
      Specified by:
      compareTo in interface Comparable
    • equals

      public boolean equals(Object c)
      Description copied from interface: Comparable
      Returns true if this object is equal to the given object.
      Specified by:
      equals in interface Comparable
      Overrides:
      equals in class Object
    • getName

      public String getName()
      Description copied from interface: Nameable
      get the name of this object.
      Specified by:
      getName in interface Nameable
      Returns:
      name of this object.
    • setName

      public void setName(String s)
      Description copied from interface: Nameable
      set the name of this object.
      Specified by:
      setName in interface Nameable
      Parameters:
      s - the new name.
    • getNames

      public static final String[] getNames(Identifier[] ids)
      Translates an array of identifiers into an array of strings
    • getNames

      public static final String[] getNames(Identifier[] ids, int toIgnore)
      Translates an array of identifiers into an array of strings, with optional removal of particular identifier
      Parameters:
      toIgnoreIndex - the index of an idetifier to ignore, if <0 no element is ignored
    • getIdentifiers

      public static final Identifier[] getIdentifiers(String[] names)
      Translates an an array of strings into an array of identifiers
    • getIdentifiers

      public static final Identifier[] getIdentifiers(IdGroup idGroup)
      Translates an IdGroup into an array of identifiers
    • getNames

      public static final String[] getNames(IdGroup ids)
      Translates an IdGroup into an array of strings
    • getNames

      public static final String[] getNames(IdGroup ids, int toIgnore)
      Translates an IDgroup into an array of strings, with optional removal of particular identifier
      Parameters:
      toIgnoreIndex - the index of an idetifier to ignore, if <0 no element is ignored
    • getNames

      public static final String[] getNames(IdGroup ids, int[] toIgnore)
      Translates an IDgroup into an array of strings, with optional removal of particular identifier
      Parameters:
      toIgnoreIndex - the indexes of an idetifier to ignore, does not need to be sorted