org.bridgedb.rdb

Class IDMapperRdb

java.lang.Object

org.bridgedb.rdb.IDMapperRdb

All Implemented Interfaces:

AttributeMapper, IDMapper, XrefIterator

Direct Known Subclasses:

SimpleGdb

public abstract class IDMapperRdb
extends Object
implements IDMapper, AttributeMapper, XrefIterator

Interface for all classes that provide Gdb-like functionality, such as looking up cross-references and backpage text.

Field Summary

Fields inherited from interface org.bridgedb.AttributeMapper

MATCH_ID

Constructor Summary

Constructors

Constructor and Description
IDMapperRdb()

Method Summary

Modifier and Type	Method and Description
abstract String	getDbName() Gets the name of te currently used gene database.
Map<Xref,Set<Xref>>	mapID(Collection<Xref> srcXrefs, DataSource... tgtDataSources)
String	toString()

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.bridgedb.IDMapper

close, freeSearch, getCapabilities, isConnected, mapID, xrefExists

Methods inherited from interface org.bridgedb.AttributeMapper

freeAttributeSearch, freeAttributeSearchEx, getAttributes, getAttributes, getAttributeSet, isFreeAttributeSearchSupported

Methods inherited from interface org.bridgedb.XrefIterator

getIterator, getIterator

Constructor Detail

IDMapperRdb

public IDMapperRdb()

Method Detail

getDbName

public abstract String getDbName()

Gets the name of te currently used gene database.

Returns:

the database name as specified in the connection string

toString

public String toString()

Overrides:

toString in class Object

Returns:

the database name, i.e. the full path to the pgdb.

mapID

public Map<Xref,Set<Xref>> mapID(Collection<Xref> srcXrefs,
                                 DataSource... tgtDataSources)
                          throws IDMapperException

Specified by:

mapID in interface IDMapper

Throws:

IDMapperException