gov.usda.gdpc
Class AbstractLocusGroup

java.lang.Object
  gov.usda.gdpc.AbstractGroup
      gov.usda.gdpc.AbstractDBElementGroup
          gov.usda.gdpc.AbstractLocusGroup

All Implemented Interfaces:

java.util.Collection, DBElementGroup, Group, java.util.List, LocusGroup

Direct Known Subclasses:

Chromosome, DefaultLocusGroup

public abstract class AbstractLocusGroup

extends AbstractDBElementGroup

implements LocusGroup

This class provides a skeletal implementation of the LocusGroup interface to minimize the effort required to implement this interface.

Author:

terryc

Field Summary

Fields inherited from class gov.usda.gdpc.AbstractDBElementGroup

myIndex

Constructor Summary

AbstractLocusGroup()
AbstractLocusGroup constructor.

AbstractLocusGroup(java.util.List list)
AbstractLocusGroup constructor.

AbstractLocusGroup(Locus[] loci)
AbstractLocusGroup constructor.

AbstractLocusGroup(LocusGroup[] groups)
AbstractLocusGroup constructor.

Method Summary

Locus	getLocus(java.lang.String dataSource, Identifier id) This returns the locus instance from this group that matches the specified id and source.
LocusGroup	getLocusGroup(LocusFilter filter) Get the locus group matching the given filter from this locus group.
java.lang.String	getType() Get type of this group.

Methods inherited from class gov.usda.gdpc.AbstractDBElementGroup

getDBElementGroup, getDBElements, getDistinctProperties, index, toString

Methods inherited from class gov.usda.gdpc.AbstractGroup

add, add, addAll, addAll, clear, contains, containsAll, get, indexOf, isEmpty, iterator, lastIndexOf, listIterator, listIterator, remove, remove, removeAll, retainAll, set, size, subList, toArray, toArray

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface gov.usda.gdpc.DBElementGroup

getDBElements, getDistinctProperties, index

Methods inherited from interface java.util.List

add, add, addAll, addAll, clear, contains, containsAll, equals, get, hashCode, indexOf, isEmpty, iterator, lastIndexOf, listIterator, listIterator, remove, remove, removeAll, retainAll, set, size, subList, toArray, toArray

Constructor Detail

AbstractLocusGroup

public AbstractLocusGroup(Locus[] loci)

AbstractLocusGroup constructor.

Parameters:

loci - list of loci to be a part of this group.

AbstractLocusGroup

public AbstractLocusGroup()

AbstractLocusGroup constructor. Creates an empty group.

AbstractLocusGroup

public AbstractLocusGroup(java.util.List list)

AbstractLocusGroup constructor.

Parameters:

list - list of objects to be a part of this group. Any null in the list will be discarded.

AbstractLocusGroup

public AbstractLocusGroup(LocusGroup[] groups)

AbstractLocusGroup constructor.

Parameters:

groups - groups to include in this new group.

Method Detail

getLocusGroup

public LocusGroup getLocusGroup(LocusFilter filter)

Get the locus group matching the given filter from this locus group.

Specified by:

getLocusGroup in interface LocusGroup

Parameters:

filter - filter

Returns:

locus group

getLocus

public Locus getLocus(java.lang.String dataSource,
                      Identifier id)

This returns the locus instance from this group that matches the specified id and source. Null will be returned if its not in this group.

Specified by:

getLocus in interface LocusGroup

Parameters:

dataSource - data source

id - identifier

Returns:

locus or null if not in this group.

getType

public java.lang.String getType()

Get type of this group.

Specified by:

getType in interface DBElementGroup

Returns:

type