001package org.biopax.paxtools.model.level3; 002 003import java.util.Set; 004 005/** 006 * Tagger interface for non-complex physical entities 007 */ 008public interface SimplePhysicalEntity extends PhysicalEntity 009{ 010 011 /** 012 * Reference entity for this physical entity. 013 * @return entity reference; i.e., that of a stateless canonical identifiable entity 014 */ 015 EntityReference getEntityReference(); 016 017 /** 018 * Reference entity for this physical entity. 019 * @param entityReference a BioPAX EntityReference object (usually a more specific subclass of) 020 */ 021 void setEntityReference(EntityReference entityReference); 022 023 /** 024 * This method returns: 025 * <ul> 026 * <li>The entity reference of this PhysicalEntity plus</li> 027 * <li>If this PhysicalEntity has member PhysicalEntities their generic EntityReferences iteratively plus</li> 028 * <li>If the EntityReference of this PhysicalEntity has member EntityReferences their members iteratively</li> 029 * </ul> 030 * @return this and members' entity references (see above) 031 */ 032 Set<EntityReference> getGenericEntityReferences(); 033 034}