001/** 002 * BioJava development code 003 * 004 * This code may be freely distributed and modified under the 005 * terms of the GNU Lesser General Public Licence. This should 006 * be distributed with the code. If you do not have a copy, 007 * see: 008 * 009 * http://www.gnu.org/copyleft/lesser.html 010 * 011 * Copyright for this code is held jointly by the individual 012 * authors. These should be listed in @author doc comments. 013 * 014 * For more information on the BioJava project and its aims, 015 * or to join the biojava-l mailing list, visit the home page 016 * at: 017 * 018 * http://www.biojava.org/ 019 * 020 * Created on Aug 30, 2011 021 * Created by Andreas Prlic 022 * 023 * @since 3.0.2 024 */ 025package org.biojava.nbio.structure.scop.server; 026 027import org.biojava.nbio.structure.scop.ScopDomain; 028 029import javax.xml.bind.JAXBContext; 030import javax.xml.bind.Marshaller; 031import javax.xml.bind.Unmarshaller; 032import javax.xml.bind.annotation.XmlAccessType; 033import javax.xml.bind.annotation.XmlAccessorType; 034import javax.xml.bind.annotation.XmlRootElement; 035import java.io.ByteArrayInputStream; 036import java.io.ByteArrayOutputStream; 037import java.io.PrintStream; 038import java.io.Serializable; 039import java.util.List; 040 041@XmlRootElement(name = "ScopDomains", namespace ="http://source.rcsb.org") 042@XmlAccessorType(XmlAccessType.PUBLIC_MEMBER) 043public class ScopDomains implements Serializable{ 044 045 /** 046 * 047 */ 048 private static final long serialVersionUID = 7693404355005856746L; 049 050 List<ScopDomain> domains ; 051 052 static JAXBContext jaxbContext; 053 static { 054 try { 055 jaxbContext= JAXBContext.newInstance(ScopDomains.class); 056 } catch (Exception e){ 057 throw new RuntimeException("Could not initialize JAXB context for " + ScopDomains.class, e); 058 } 059 } 060 061 062 public void setScopDomain(List<ScopDomain> domains) { 063 this.domains = domains; 064 065 } 066 067 public List<ScopDomain> getScopDomain() { 068 return domains; 069 } 070 071 public String toXML(){ 072 073 ByteArrayOutputStream baos = new ByteArrayOutputStream(); 074 075 PrintStream ps = new PrintStream(baos); 076 077 try { 078 079 Marshaller m = jaxbContext.createMarshaller(); 080 081 m.setProperty(Marshaller.JAXB_FORMATTED_OUTPUT, Boolean.TRUE); 082 083 m.marshal( this, ps); 084 085 086 } catch (Exception e){ 087 throw new RuntimeException("Could not convert " + getClass() + " to XML", e); 088 } 089 090 return baos.toString(); 091 092 } 093 094 public static ScopDomains fromXML(String xml){ 095 096 ScopDomains job = null; 097 098 try { 099 100 Unmarshaller un = jaxbContext.createUnmarshaller(); 101 102 ByteArrayInputStream bais = new ByteArrayInputStream(xml.getBytes()); 103 104 job = (ScopDomains) un.unmarshal(bais); 105 106 } catch (Exception e){ 107 throw new RuntimeException("Could not parse " + ScopDomains.class + " from XML", e); 108 } 109 110 return job; 111 } 112 113 114 115 116}