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 Nov 7, 2011 021 * Created by Andreas Prlic 022 * 023 * @since 3.0.2 024 */ 025package org.biojava.nbio.structure.domain; 026 027 028import javax.xml.bind.JAXBContext; 029import javax.xml.bind.Marshaller; 030import javax.xml.bind.Unmarshaller; 031import javax.xml.bind.annotation.XmlAccessType; 032import javax.xml.bind.annotation.XmlAccessorType; 033import javax.xml.bind.annotation.XmlRootElement; 034import java.io.ByteArrayInputStream; 035import java.io.ByteArrayOutputStream; 036import java.io.PrintStream; 037import java.util.HashMap; 038import java.util.Map; 039 040 041@XmlRootElement(name = "AssignmentXML", namespace ="http://source.rcsb.org") 042@XmlAccessorType(XmlAccessType.PUBLIC_MEMBER) 043 044public class AssignmentXMLSerializer { 045 046 Map<String, String> assignments; 047 048 static JAXBContext jaxbContext; 049 static { 050 try { 051 jaxbContext= JAXBContext.newInstance(AssignmentXMLSerializer.class); 052 } catch (Exception e){ 053 e.printStackTrace(); 054 } 055 } 056 057 public AssignmentXMLSerializer(){ 058 assignments = new HashMap<String, String>(); 059 060 } 061 062 public void setAssignments(Map<String, String> assignments){ 063 064 this.assignments = assignments; 065 066 } 067 068 public Map<String, String> getAssignments(){ 069 return assignments; 070 } 071 072 public String toXML(){ 073 074 ByteArrayOutputStream baos = new ByteArrayOutputStream(); 075 076 PrintStream ps = new PrintStream(baos); 077 078 try { 079 080 Marshaller m = jaxbContext.createMarshaller(); 081 082 m.setProperty(Marshaller.JAXB_FORMATTED_OUTPUT, Boolean.TRUE); 083 084 m.marshal( this, ps); 085 086 087 } catch (Exception e){ 088 e.printStackTrace(); 089 } 090 091 return baos.toString(); 092 093 } 094 095 public static AssignmentXMLSerializer fromXML(String xml){ 096 097 AssignmentXMLSerializer job = null; 098 099 try { 100 101 Unmarshaller un = jaxbContext.createUnmarshaller(); 102 103 ByteArrayInputStream bais = new ByteArrayInputStream(xml.getBytes()); 104 105 job = (AssignmentXMLSerializer) un.unmarshal(bais); 106 107 } catch (Exception e){ 108 e.printStackTrace(); 109 } 110 111 return job; 112 } 113 114 115}