org.biopax.paxtools.model
Class BioPAXFactory

java.lang.Object
  org.biopax.paxtools.model.BioPAXFactory

Direct Known Subclasses:

BioPAXFactoryAdaptor

public abstract class BioPAXFactory
extends java.lang.Object

Constructor Summary

BioPAXFactory()

Method Summary

abstract boolean	canInstantiate(java.lang.Class<? extends BioPAXElement> aClass)
<T extends BioPAXElement> T	create(java.lang.Class<T> aClass, java.lang.String uri)
BioPAXElement	create(java.lang.String localName, java.lang.String uri)
protected abstract <T extends BioPAXElement> T	createInstance(java.lang.Class<T> aClass, java.lang.String id)
abstract Model	createModel()
abstract <T extends BioPAXElement> java.lang.Class<T>	getImplClass(java.lang.Class<T> aModelInterfaceClass) Get a concrete or abstract BioPAX type (not interface), from org.biopax.paxtools.impl..*, i.e., one that has persistence/search annotations, etc.
abstract BioPAXLevel	getLevel()

Methods inherited from class java.lang.Object

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

Constructor Detail

BioPAXFactory

public BioPAXFactory()

Method Detail

create

public BioPAXElement create(java.lang.String localName,
                            java.lang.String uri)

create

public <T extends BioPAXElement> T create(java.lang.Class<T> aClass,
                                          java.lang.String uri)

createInstance

protected abstract <T extends BioPAXElement> T createInstance(java.lang.Class<T> aClass,
                                                              java.lang.String id)
                                                   throws java.lang.ClassNotFoundException,
                                                          java.lang.InstantiationException,
                                                          java.lang.IllegalAccessException

Throws:

java.lang.ClassNotFoundException

java.lang.InstantiationException

java.lang.IllegalAccessException

canInstantiate

public abstract boolean canInstantiate(java.lang.Class<? extends BioPAXElement> aClass)

createModel

public abstract Model createModel()

getLevel

public abstract BioPAXLevel getLevel()

getImplClass

public abstract <T extends BioPAXElement> java.lang.Class<T> getImplClass(java.lang.Class<T> aModelInterfaceClass)

Get a concrete or abstract BioPAX type (not interface), from org.biopax.paxtools.impl..*, i.e., one that has persistence/search annotations, etc. This may be required for some DAO and web service controllers; it also returns such abstract BioPAX "adapters" as XReferrableImpl, ProcessImpl, etc.

Type Parameters:

T -

Parameters:

aModelInterfaceClass -

Returns: