XML parsing through saxparser in java

<?xml version="1.0"?>
<!DOCTYPE PubmedArticleSet PUBLIC "-//NLM//DTD PubMedArticle, 1st January 2011//EN" "http://www.ncbi.nlm.nih.gov/entrez/query/DTD/pubmed_110101.dtd">
<PubmedArticleSet>
<PubmedArticle>
    <MedlineCitation Owner="NLM" Status="MEDLINE">
        <PMID Version="1">20667046</PMID>
        <DateCreated>
            <Year>2010</Year>
            <Month>09</Month>

</PubDate>
                </JournalIssue>
                <Title>Tropical medicine & international health : TM & IH</Title>
                <ISOAbbreviation>Trop. Med. Int. Health</ISOAbbreviation>
            </Journal>
            <ArticleTitle>Sharp injuries and their determinants among health care workers at first-level care facilities in Sindh Province, Pakistan.</ArticleTitle>
            <Pagination>

<MedlinePgn>1244-51</MedlinePgn>
            </Pagination>
            <ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1365-3156.2010.02610.x</ELocationID>
            <Abstract>
                <AbstractText Label="UNLABELLED">SUMMARY OBJECTIVES: To assess the rate and determinants of sharp injuries during the previous 6 months among health care workers at first-level care facilities in two districts of Pakistan.</AbstractText>
                <AbstractText Label="METHODS" NlmCategory="METHODS">Cross-sectional survey at public, general practitioners and non-licensed private practitioners selected through stratified random sampling. At each facility, we interviewed a prescriber and a dispenser/injection provider about knowledge of bloodborne pathogens transmission and preventive practices, risk perception, and use of precautions and sharp injuries received during the previous 6 months. Multivariable Poisson regression was used to assess the factors associated with the number of sharp injuries.</AbstractText>
                <AbstractText Label="RESULTS" NlmCategory="RESULTS">Fifty-four percentage of the 233 workers had at least one injury during the previous 6 months. The overall rate of sharp injuries per person per year was 3.7; among non-physician prescribers (9%), it was 4.3; among dispensers (69%), it was 3.7, and among physicians (18%), it was 2.1. In the multivariable model, work experience, risk perception and type of health care worker were significantly associated with receiving sharp injuries during the previous 6 months. In the model including dispensers only, a higher knowledge score was associated with fewer sharp injuries, while perceived severity of disease and lack of professional qualification were associated with more.</AbstractText>

<AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">Sharp injuries are common in Pakistan. Better knowledge about modes of bloodborne pathogen transmission and professional qualification may reduce their incidence.</AbstractText>
                <CopyrightInformation>© 2010 Blackwell Publishing Ltd.</CopyrightInformation>
            </Abstract>
            <Affiliation>Department of Community Health Sciences, Aga Khan University, Karachi, Pakistan. Naveed.Janjua@bccdc.ca</Affiliation>
            <AuthorList CompleteYN="Y">
                <Author ValidYN="Y">
                    <LastName>Janjua</LastName>

<ForeName>Naveed Z</ForeName>
                    <Initials>NZ</Initials>
                </Author>
                <Author ValidYN="Y">
                    <LastName>Khan</LastName>
                    <ForeName>Mohammad I</ForeName>
                    <Initials>MI</Initials>

</Author>
                <Author ValidYN="Y">
                    <LastName>Mahmood</LastName>
                    <ForeName>Bushra</ForeName>
                    <Initials>B</Initials>
                </Author>
            </AuthorList>

<Language>eng</Language>
            <PublicationTypeList>
                <PublicationType>Journal Article</PublicationType>
                <PublicationType>Multicenter Study</PublicationType>
            </PublicationTypeList>
        </Article>
        <MedlineJournalInfo>

<Country>England</Country>
            <MedlineTA>Trop Med Int Health</MedlineTA>
            <NlmUniqueID>9610576</NlmUniqueID>
            <ISSNLinking>1360-2276</ISSNLinking>
        </MedlineJournalInfo>
        <CitationSubset>IM</CitationSubset>

<MeshHeadingList>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Adult</DescriptorName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="Y">Blood-Borne Pathogens</DescriptorName>
            </MeshHeading>
            <MeshHeading>

<DescriptorName MajorTopicYN="N">Cross Infection</DescriptorName>
                <QualifierName MajorTopicYN="Y">prevention & control</QualifierName>
                <QualifierName MajorTopicYN="N">transmission</QualifierName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Cross-Sectional Studies</DescriptorName>

</MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="Y">Health Knowledge, Attitudes, Practice</DescriptorName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="Y">Health Personnel</DescriptorName>
                <QualifierName MajorTopicYN="N">psychology</QualifierName>

</MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Humans</DescriptorName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Infectious Disease Transmission, Patient-to-Professional</DescriptorName>
                <QualifierName MajorTopicYN="N">prevention & control</QualifierName>

</MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Medical Staff</DescriptorName>
                <QualifierName MajorTopicYN="N">psychology</QualifierName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Middle Aged</DescriptorName>

</MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Multivariate Analysis</DescriptorName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Needlestick Injuries</DescriptorName>
                <QualifierName MajorTopicYN="Y">epidemiology</QualifierName>

</MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N" Type="Geographic">Pakistan</DescriptorName>
                <QualifierName MajorTopicYN="N">epidemiology</QualifierName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Perception</DescriptorName>

</MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Personnel, Hospital</DescriptorName>
                <QualifierName MajorTopicYN="N">statistics & numerical data</QualifierName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Questionnaires</DescriptorName>

</MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Risk</DescriptorName>
            </MeshHeading>
            <MeshHeading>
                <DescriptorName MajorTopicYN="N">Risk Assessment</DescriptorName>
            </MeshHeading>
            <MeshHeading>

<DescriptorName MajorTopicYN="N">Young Adult</DescriptorName>
            </MeshHeading>
        </MeshHeadingList>
    </MedlineCitation>
    <PubmedData>
        <History>
            <PubMedPubDate PubStatus="entrez">
                <Year>2010</Year>

<Month>10</Month>
                <Day>21</Day>
                <Hour>6</Hour>
                <Minute>0</Minute>
            </PubMedPubDate>
        </History>
        <PublicationStatus>ppublish</PublicationStatus>

</PubmedArticleSet>

hi I am new to java xml pasing . I am using saxparser for parsing this above xml file.

I want to fetch

<Abstract>
                <AbstractText Label="UNLABELLED">SUMMARY OBJECTIVES: To assess the rate and determinants of sharp injuries during the previous 6 months among health care workers at first-level care facilities in two districts of Pakistan.</AbstractText>
                <AbstractText Label="METHODS" NlmCategory="METHODS">Cross-sectional survey at public, general practitioners and non-licensed private practitioners selected through stratified random sampling. At each facility, we interviewed a prescriber and a dispenser/injection provider about knowledge of bloodborne pathogens transmission and preventive practices, risk perception, and use of precautions and sharp injuries received during the previous 6 months. Multivariable Poisson regression was used to assess the factors associated with the number of sharp injuries.</AbstractText>
                <AbstractText Label="RESULTS" NlmCategory="RESULTS">Fifty-four percentage of the 233 workers had at least one injury during the previous 6 months. The overall rate of sharp injuries per person per year was 3.7; among non-physician prescribers (9%), it was 4.3; among dispensers (69%), it was 3.7, and among physicians (18%), it was 2.1. In the multivariable model, work experience, risk perception and type of health care worker were significantly associated with receiving sharp injuries during the previous 6 months. In the model including dispensers only, a higher knowledge score was associated with fewer sharp injuries, while perceived severity of disease and lack of professional qualification were associated with more.</AbstractText>

<AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">Sharp injuries are common in Pakistan. Better knowledge about modes of bloodborne pathogen transmission and professional qualification may reduce their incidence.</AbstractText>

I am not able to fetch abstract properly I want all the data in one string i.e Objectiv ,Result conclusion and method in one string.

This is my java code for doing this

package com.ZenTech.pubmed.xml;

import java.io.File;
import java.io.FileInputStream;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.io.Reader;
import java.io.StringReader;
import java.util.ArrayList;

import javax.xml.parsers.SAXParser;
import javax.xml.parsers.SAXParserFactory;
import org.xml.sax.Attributes;
import org.xml.sax.InputSource;
import org.xml.sax.SAXException;
import org.xml.sax.helpers.DefaultHandler;
import javax.xml.parsers.DocumentBuilder;
import javax.xml.parsers.DocumentBuilderFactory;
import javax.xml.parsers.ParserConfigurationException;
import javax.xml.transform.Result;
import javax.xml.transform.Source;
import javax.xml.transform.Transformer;
import javax.xml.transform.TransformerFactory;
import javax.xml.transform.dom.DOMSource;
import javax.xml.transform.stream.StreamResult;
import org.w3c.dom.Document;

import com.zenTech.pubmed.bo.Abstract;

public class StringToXML {

DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
	DocumentBuilder builder;
	Abstract objAbstract;
	String completDatastring;

// ArrayList<Abstract> listAbstracts;
	// listAbstracts = new ArrayList<Abstract>();

public Abstract convertToXML(String xmlString) {

try {
			builder = factory.newDocumentBuilder();
			Document document = builder.parse(new InputSource(new StringReader(
					xmlString)));
			TransformerFactory transFactory = TransformerFactory.newInstance();
			Transformer former = transFactory.newTransformer();
			Source src = new DOMSource(document);
			Result dest = new StreamResult(new File(
					"xmlFileName.xml"));
			former.transform(src, dest);
			SAXParserFactory factory = SAXParserFactory.newInstance();
			SAXParser saxParser = null;
			try {
				saxParser = factory.newSAXParser();
				DefaultHandler handler = new DefaultHandler() {
					boolean isPMID = false;
					boolean isTitle = false;
					boolean isResult = false;
					boolean isBackground = false;
					boolean isObjective = false;
					boolean isMethods = false;
					boolean isConclusions = false;
					boolean isAbstractData = false;

public void startElement(String uri, String localName,
							String qName, Attributes attributes)
							throws SAXException {

// if qName is PubmedArticle, we got the the abstract
						if (qName.equalsIgnoreCase("PubmedArticle")) {
							objAbstract = new Abstract();
						}
						if (qName.equalsIgnoreCase("PMID")) {
							isPMID = true;
						}
						if (qName.equalsIgnoreCase("ArticleTitle")) {
							isTitle = true;
						}
						
						if (qName.equalsIgnoreCase("AbstractText")) {
							isAbstractData = true;

for (int i = 0; i < attributes.getLength(); i++) {
							String attributeLabelText = attributes.getQName(i);
						 if (attributeLabelText.equalsIgnoreCase("Label")) {
							 if (attributes.getValue(attributeLabelText)
										.equalsIgnoreCase("BACKGROUND")) {
									isBackground = true;
								}	
							 if (attributes.getValue(attributeLabelText)
										.equalsIgnoreCase("RESULTS")) {
									isResult = true;
								}
								if (attributes.getValue(attributeLabelText)
										.equalsIgnoreCase("METHODS")) {
									isMethods = true;
								}
								
								if (attributes.getValue(attributeLabelText)
										.equalsIgnoreCase("CONCLUSIONS")) {
									isConclusions = true;
								}
							}
						}
					}
//						if (qName.equalsIgnoreCase("AbstractText")) {
//							isAbstractData = true;
//						}

}

public void endElement(String uri, String localName,
							String qName) throws SAXException {

// System.out.println("End Element :" + qName);

}

public void characters(char ch[], int start, int length)
							throws SAXException {
						if (isPMID) {
							String pmid = new String(ch, start, length);

System.out.println("PMID : " + pmid);
							objAbstract.setId(pmid);

isPMID = false;
						}
						if (isTitle) {
							String title = new String(ch, start, length);

System.out.println("title : " + title);
							objAbstract.setTitle(title);

isTitle = false;
						}

if (isAbstractData && (isBackground || isResult || isMethods || isConclusions)) {
							String result="";
							String abstractText1 = new String(ch, start, length);
							result =result+abstractText1;
							System.out.println("complete abstractData : " + result);
							objAbstract.setResults(result);
							isResult=false;
							isMethods=false;
							isConclusions=false;
							isAbstractData = false;
						}
						else if (isAbstractData && !isBackground && !isResult && !isMethods && !isConclusions) {
							
							String abstractText = new String(ch, start, length);
							System.out.println("abstractData : " + abstractText);
							objAbstract.setResults(abstractText);
							isAbstractData = false;
						}

}

};

InputStream inputStream = new FileInputStream(
						"xmlFileName.xml");
				Reader reader = new InputStreamReader(inputStream, "UTF-8");
				InputSource is = new InputSource(reader);
				is.setEncoding("UTF-8");
				saxParser.parse(is, handler);

} catch (ParserConfigurationException e1) {
				// TODO Auto-generated catch block
				e1.printStackTrace();
			} catch (SAXException e1) {
				// TODO Auto-generated catch block
				e1.printStackTrace();
			}

} catch (Exception e) {

e.printStackTrace();

}

return objAbstract;

}

I am not getting the correct result. I am new to java please help me to short out this problem.
I will be very thankful.
sample code will be very helpful
Sorry for my bed english
thanks in advance

I've added some code tags to your post making it much easier to read. Please do so yourself next time. You can read about them here.

I would do something like:

Moving to our XML forum.

[0] First of all, the xml document seems mal-formed (maybe due to some artifact in posting?). This is an example.
><Title>Tropical medicine & international health : TM & IH</Title>
The ampersands are not escaped... There are a couple of instances like this. This must be rectified before doing anything else.

[1] Then the main functionality of DefaultHandler pose problem, as far as I can see (as it is not easy reading, in particular there involves some user-defined type Abstract...).

[1.1] Your DefaultHandler is written as (local) anonymous inner class. This is very hard to debug in particular when it involves many lines of codes. It would be fine if it is fairly short or its functionality is very plain and easy to track. This is not the case. Hence, I would say put the whole subclassing of DefaultHandler into a separate class, an inner class if need be and inner to StringToXML class.

[1.2] And then, there seems to be a big problem in the scope and visibility of objAbstract. It is declared in the outer class. But, the code seems tasking to make change to it inside the anonymous inner class. That poses problem. (If I recall the error be asking the reference need be declared final in the first place and that's put the situation into a dilemma...)

[1.3] If still keeping in the same scheme, an objAbstract need to be declared inside the (extension of) DefaultHander. Also the setting should then be fine within the DefaultHandler. The problem is to retrieve it in the outer class. This can be done by reflection, adding obscurity to the approach. Something like this (recall that objAbstract would be declared within the handler)

[2] I would say, repeating [1.1], it would gain more clarity and less obscurity if you separate the subclass of DefaultHandler into a named inner class to StringToXML. Declare the objAbstract inside the handler. Then, the return statement would then be as simple as this with much clarity.