uk.ac.roslin.ensembl.dao.database

Class DBXRefDAO

java.lang.Object

uk.ac.roslin.ensembl.dao.database.DBBaseDAO

uk.ac.roslin.ensembl.dao.database.DBXRefDAO

All Implemented Interfaces:

ReInitializationDAO, XRefDAO

public class DBXRefDAO
extends DBBaseDAO
implements XRefDAO

Field Summary

Fields inherited from class uk.ac.roslin.ensembl.dao.database.DBBaseDAO

configuration, daoFactory

Constructor Summary

Constructors

Constructor and Description
DBXRefDAO()
DBXRefDAO(DAOFactory factory)

Method Summary

Methods

Modifier and Type	Method and Description
TreeSet<String>	getAllSynonyms(XRefed object)
List<DAXRef>	getAllXRefs(IdentifiableObject feature)
TreeSet<String>	getSynonyms(XRef xref)
void	reInitialize(IdentifiableObject xref) Uses the xref_id of an xref to fill in missing data that would have been present if the the xref had initially been made by a call to getXRefs on the identifiable object.

Methods inherited from class uk.ac.roslin.ensembl.dao.database.DBBaseDAO

getFactory, setConfiguration, setFactory

Methods inherited from class java.lang.Object

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

Constructor Detail

DBXRefDAO

public DBXRefDAO()

DBXRefDAO

public DBXRefDAO(DAOFactory factory)
          throws DAOException

Throws:

DAOException

Method Detail

getAllXRefs

public List<DAXRef> getAllXRefs(IdentifiableObject feature)
                         throws DAOException

Specified by:

getAllXRefs in interface XRefDAO

Throws:

DAOException

reInitialize

public void reInitialize(IdentifiableObject xref)
                  throws DAOException

Uses the xref_id of an xref to fill in missing data that would have been present if the the xref had initially been made by a call to getXRefs on the identifiable object.

Specified by:

reInitialize in interface ReInitializationDAO

Parameters:

xref -

Throws:

DAOException

getSynonyms

public TreeSet<String> getSynonyms(XRef xref)
                            throws DAOException

Specified by:

getSynonyms in interface XRefDAO

Throws:

DAOException

getAllSynonyms

public TreeSet<String> getAllSynonyms(XRefed object)
                               throws DAOException

Specified by:

getAllSynonyms in interface XRefDAO

Throws:

DAOException