001package org.biopax.paxtools.query.wrapperL3; 002 003import org.biopax.paxtools.controller.PathAccessor; 004import org.biopax.paxtools.model.level3.PhysicalEntity; 005 006/** 007 * Filter by organism. Applied to PhysicalEntity. Checks if their EntityReference is associated with 008 * one of the given organisms. 009 * 010 * @author Ozgun Babur 011 */ 012public class OrganismFilter extends StringFieldFilter 013{ 014 /** 015 * Constructor. 016 * @param organism organisms to select 017 */ 018 public OrganismFilter(String[] organism) 019 { 020 super(true, organism); 021 } 022 023 /** 024 * Creates the accessor from PhysicalEntity to the organism of related EntityReference. 025 */ 026 @Override 027 public void createFieldAccessors() 028 { 029 addAccessor(new PathAccessor("PhysicalEntity/entityReference/organism/name"), 030 PhysicalEntity.class); 031 addAccessor(new PathAccessor("PhysicalEntity/entityReference/organism/xref:UnificationXref/id"), 032 PhysicalEntity.class); 033 } 034}