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MarkLogic Connector for Hadoop MapReduce
/*
* Copyright 2003-2017 MarkLogic Corporation
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
package com.marklogic.mapreduce.examples;
import info.bliki.wiki.model.WikiModel;
import java.io.IOException;
import java.io.StringReader;
import java.net.URI;
import java.net.URISyntaxException;
import java.util.ArrayList;
import java.util.LinkedList;
import java.util.List;
import java.util.Properties;
import org.apache.hadoop.conf.Configuration;
import org.apache.hadoop.fs.FSDataInputStream;
import org.apache.hadoop.fs.FileSystem;
import org.apache.hadoop.fs.Path;
import org.apache.hadoop.io.Text;
import org.apache.hadoop.mapreduce.InputSplit;
import org.apache.hadoop.mapreduce.Job;
import org.apache.hadoop.mapreduce.JobContext;
import org.apache.hadoop.mapreduce.Mapper;
import org.apache.hadoop.mapreduce.RecordReader;
import org.apache.hadoop.mapreduce.TaskAttemptContext;
import org.apache.hadoop.mapreduce.lib.input.FileInputFormat;
import org.apache.hadoop.mapreduce.lib.input.FileSplit;
import org.apache.hadoop.util.GenericOptionsParser;
import org.xmlpull.v1.XmlPullParser;
import org.xmlpull.v1.XmlPullParserException;
import org.xmlpull.v1.XmlPullParserFactory;
import com.marklogic.cpox.SimpleLogger;
import com.marklogic.cpox.Utilities;
import com.marklogic.mapreduce.ContentOutputFormat;
import com.marklogic.mapreduce.DocumentURI;
import com.marklogic.xcc.Session;
/**
* Load wiki documents from HDFS into MarkLogic Server.
* Used with the configuration file conf/marklogic-wiki.xml.
*/
public class WikiLoader {
public static class ArticleMapper
extends Mapper {
private DocumentURI uri = new DocumentURI();
public void map(Text path, Text page, Context context)
throws IOException, InterruptedException {
uri.setUri(path.toString());
context.write(uri, page);
}
}
public static void main(String[] args) throws Exception {
Configuration conf = new Configuration();
if (args.length < 2) {
System.err.println("Usage: WikiLoader configFile inputDir");
System.exit(2);
}
String[] otherArgs = new GenericOptionsParser(conf, args).getRemainingArgs();
Job job = Job.getInstance(conf, "wiki loader");
job.setJarByClass(WikiLoader.class);
job.setInputFormatClass(WikiInputFormat.class);
job.setMapperClass(ArticleMapper.class);
job.setMapOutputKeyClass(DocumentURI.class);
job.setMapOutputValueClass(Text.class);
job.setOutputFormatClass(ContentOutputFormat.class);
ContentInputFormat.setInputPaths(job, new Path(otherArgs[1]));
conf = job.getConfiguration();
conf.addResource(otherArgs[0]);
System.exit(job.waitForCompletion(true) ? 0 : 1);
}
}
class WikiInputFormat extends FileInputFormat {
@Override
protected boolean isSplitable(JobContext context, Path filename) {
return true;
}
@Override
public RecordReader createRecordReader(InputSplit split,
TaskAttemptContext context) throws IOException, InterruptedException {
return new WikiReader();
}
}
class Article {
String title;
StringBuilder pageContent;
public Article(String title, StringBuilder pageContent) {
this.title = title;
this.pageContent = pageContent;
}
}
class WikiReader extends RecordReader {
static final int BUFFER_SIZE = 65536;
static final int READ_AHEAD_SIZE = 2048;
static final String BEGIN_PAGE_TAG = "";
static final String END_PAGE_TAG = " ";
static final String END_DOC_TAG = "";
private Text key = new Text();
private Text value = new Text();
private List articles;
private int recordCount = 0;
public WikiReader() {
}
@Override
public void close() throws IOException {
}
@Override
public Text getCurrentKey() throws IOException, InterruptedException {
return key;
}
@Override
public Text getCurrentValue() throws IOException, InterruptedException {
return value;
}
@Override
public float getProgress() throws IOException, InterruptedException {
if (articles == null || articles.isEmpty()) {
return 0;
}
return recordCount / (float)articles.size();
}
@Override
public void initialize(InputSplit inSplit, TaskAttemptContext context)
throws IOException, InterruptedException {
Path file = ((FileSplit)inSplit).getPath();
FileSystem fs = file.getFileSystem(context.getConfiguration());
FSDataInputStream fileIn = fs.open(file);
byte[] buf = new byte[BUFFER_SIZE];
long bytesTotal = inSplit.getLength();
long start = ((FileSplit)inSplit).getStart();
fileIn.seek(start);
long bytesRead = 0;
StringBuilder pages = new StringBuilder();
int sindex = -1;
while (true) {
int length = (int)Math.min(bytesTotal - bytesRead, buf.length);
int read = fileIn.read(buf, 0, length);
if (read == -1) {
System.out.println("Unexpected EOF: bytesTotal=" + bytesTotal +
"bytesRead=" + bytesRead);
break;
}
bytesRead += read;
String temp = new String(new String(buf, 0, read));
if (sindex == -1) { // haven't found the start yet
sindex = temp.indexOf(BEGIN_PAGE_TAG);
if (sindex > -1) {
pages.append(temp.substring(sindex));
}
} else if (bytesRead < bytesTotal) { // haven't completed the split
pages.append(temp);
} else { // reached the end of this split
// look for end
int eindex = 0;
if (temp.contains(END_DOC_TAG) || // reached the end of doc
temp.endsWith(END_PAGE_TAG)) {
eindex = temp.lastIndexOf(END_PAGE_TAG);
pages.append(temp.substring(0,
eindex + END_PAGE_TAG.length()));
System.out.println("Found end of doc.");
} else { // need to read ahead to look for end of page
while (true) {
read = fileIn.read(buf, 0, READ_AHEAD_SIZE);
if (read == -1) { // no more to read
System.out.println("Unexpected EOF: bytesTotal=" + bytesTotal +
"bytesRead=" + bytesRead);
System.out.println(temp);
break;
}
bytesRead += read;
// look for end
temp = new String(buf, 0, read);
eindex = temp.indexOf(END_PAGE_TAG);
if (eindex > -1) {
pages.append(temp.substring(0,
eindex + END_PAGE_TAG.length()));
break;
} else {
pages.append(temp);
}
}
}
break;
}
}
fileIn.close();
articles = WikiModelProcessor.process(pages);
}
@Override
public boolean nextKeyValue() throws IOException, InterruptedException {
if (articles != null && articles.size() > recordCount) {
Article article = articles.get(recordCount);
key.set(article.title);
value.set(article.pageContent.toString());
recordCount++;
return true;
}
return false;
}
static class WikiModelProcessor {
/**
*
*/
private static final String TITLE = "title";
/**
*
*/
private static final String PAGE = "page";
private static final String ROOT = "mediawiki";
private static final String NS_XML = "http://www.w3.org/XML/1998/namespace";
private static final String HEADER =
" \n" +
" \n" +
" Wikipedia \n" +
" MediaWiki 1.16alpha-wmf \n" +
" first-letter \n" +
" \n" +
" Media \n" +
" Special \n" +
" Talk \n" +
" User \n" +
" User talk \n" +
" Wikipedia \n" +
" Wikipedia talk \n" +
" File \n" +
" File talk \n" +
" MediaWiki \n" +
" MediaWiki talk \n" +
" Template \n" +
" Template talk \n" +
" Help \n" +
" Help talk \n" +
" Category \n" +
" Category talk \n" +
" Portal \n" +
" Portal talk \n" +
" \n" +
" \n";
private static final String FOOTER = "\n ";
private static LinkedList path;
private static StringBuilder article;
private static String title;
private static XmlPullParser xpp;
static SimpleLogger logger = SimpleLogger.getSimpleLogger();
private static int errors = 0;
private static int pages = 0;
private static String namespace;
private static String language;
private static XmlPullParserFactory factory;
private static XmlPullParser parser;
private static Session session;
private static List articles;
/**
* @param args
* @throws Exception
*/
public static List process(StringBuilder input) {
input.insert(0, HEADER);
input.append(FOOTER);
Properties properties = new Properties();
try {
factory = XmlPullParserFactory.newInstance(properties
.getProperty(XmlPullParserFactory.PROPERTY_NAME), null);
factory.setNamespaceAware(true);
xpp = factory.newPullParser();
xpp.setInput(new StringReader(input.toString()));
// TODO feature isn't supported by xpp3 - look at xpp5?
// xpp.setFeature(XmlPullParser.FEATURE_DETECT_ENCODING, true);
// TODO feature isn't supported by xpp3 - look at xpp5?
// xpp.setFeature(XmlPullParser.FEATURE_PROCESS_DOCDECL, true);
xpp.setFeature(XmlPullParser.FEATURE_PROCESS_NAMESPACES, true);
logger.configureLogger(new Properties());
process();
} catch (Exception ex) {
logger.logException(ex);
}
logger.info("finished " + pages + " pages with " + errors
+ " errors");
return articles;
}
/**
* @throws IOException
* @throws XmlPullParserException
*/
private static void process() throws XmlPullParserException,
IOException {
// transform to final output
int event;
path = new LinkedList();
article = null;
title = null;
logger.info("starting loop");
while (true) {
event = xpp.next();
switch (event) {
case XmlPullParser.END_DOCUMENT:
processEndDocument();
// exit the loop
return;
case XmlPullParser.END_TAG:
processEndElement(xpp.getName());
break;
case XmlPullParser.START_TAG:
processStartElement(xpp.getName());
break;
case XmlPullParser.TEXT:
if (null != article) {
String name = path.getLast();
if ("comment".equals(name) || "text".equals(name)) {
// parse comment elements
// parse text elements
article.append(parse(xpp.getText()));
} else {
article
.append(Utilities
.escapeXml(xpp.getText()));
}
}
break;
default:
throw new IOException("unexpected event: " + event
+ " at " + xpp.getPositionDescription());
}
}
}
/**
* @param text
* @return
* @throws IOException
*/
private static String parse(String text) throws IOException {
if (null == text || "".equals(text.trim())) {
return null;
}
// parse wiki markup to xml
// TODO: this is slow with bliki - might need concurrency
// use a new object every time, to prevent leaks
// no doubt this makes it slower...
String xml = new WikiModel("${image}", "${title}").render(text);
if (null == xml || "".equals(xml.trim())) {
return xml;
}
// verify xml is well-formed
try {
// use this xpp object to check output from the wikimedia parser
parser = factory.newPullParser();
parser
.setInput(new StringReader("" + xml
+ " "));
parser.setFeature(XmlPullParser.FEATURE_PROCESS_NAMESPACES,
true);
int event;
String temp;
char[] chars;
int c;
while (true) {
// with some Japanese text, next() throws
// ArrayIndexOutOfBoundsException
try {
event = parser.next();
} catch (ArrayIndexOutOfBoundsException e) {
throw new XmlPullParserException(e.getMessage(),
parser, null);
}
switch (event) {
case XmlPullParser.END_DOCUMENT:
// exit the loop
return xml;
case XmlPullParser.END_TAG:
parser.getName();
parser.getNamespace();
parser.getText();
break;
case XmlPullParser.START_TAG:
parser.getName();
parser.getNamespace();
parser.getText();
break;
case XmlPullParser.TEXT:
temp = parser.getText();
if (null != temp) {
chars = temp.toCharArray();
// xpp3 doesn't check codepoint values
// check them to avoid XDMP errors
for (int i = 0; i < chars.length; i++) {
c = chars[i];
// #x9 | #xA | #xD
// | [#x20-#xD7FF]
// | [#xE000-#xFFFD]
// | [#x10000-#x10FFFF]
// this implementation is abbreviated
if (9 == c || 10 == c || 13 == c || c > 31) {
continue;
}
throw new XmlPullParserException(
"bad codepoint value: " + c, parser,
null);
}
}
break;
default:
throw new IOException("unexpected event: " + event
+ " at " + parser.getPositionDescription());
}
}
} catch (XmlPullParserException e) {
logger.warning(title + ": " + e.getMessage());
errors++;
return Utilities.escapeXml(text);
}
}
/**
* @param name
* @throws IOException
*/
private static void processEndElement(String name) throws IOException {
// logger.info(name);
if (!path.getLast().equals(name)) {
throw new IOException("found " + name + " expected "
+ path.getLast() + "; " + title + "; " + article);
}
path.removeLast();
if (null == article) {
return;
}
article.append(xpp.getText());
// look for end of article
if (!PAGE.equals(name)) {
return;
}
boolean encodeTitle = false;
URI uri = null;
if (encodeTitle) {
// try encoding the entry name
try {
// this form of URI() does escaping nicely
uri = new URI(null, title, null);
} catch (URISyntaxException e) {
try {
// URI(schema, ssp, fragment) constructor cannot handle
// ssp = 2008-11-07T12:23:47.617766-08:00/1
// (despite what the javadoc says)...
// in this situation, treat the path as the fragment.
uri = new URI(null, null, title);
} catch (URISyntaxException e1) {
throw new IOException(e);
}
}
}
// add article to list
// include the language in the title
String path = language + "wiki/"
+ (encodeTitle ? uri.toString() : title);
if (articles == null) {
articles = new ArrayList();
}
articles.add(new Article(path, article));
// ready for the next page
article = null;
}
/**
* @param name
* @throws IOException
* @throws XmlPullParserException
*/
private static void processStartElement(String name)
throws IOException, XmlPullParserException {
// logger.info(name);
path.add(name);
// look for start of article
if (ROOT.equals(name)) {
namespace = xpp.getNamespace();
language = xpp.getAttributeValue(NS_XML, "lang");
return;
}
if (PAGE.equals(name)) {
if (null != article) {
throw new IOException("article not null at start of page");
}
// this is clumsy, but should work ok
article = new StringBuilder("<"
+ PAGE
// propagate the XML namespace
+ (null == namespace ? ""
: (" xmlns=\"" + namespace + "\""))
// propagate the xml:lang attribute
+ (null == language ? ""
: (" xml:lang=\"" + language + "\""))
// end of the start tag
+ ">");
pages++;
return;
}
if (null != article && !xpp.isEmptyElementTag()) {
// write empty elements via end-element, only.
// note that attributes are still ok in this case
article.append(xpp.getText());
}
if (!TITLE.equals(name)) {
return;
}
// create zip entry when we see the title element
title = xpp.nextText().trim();
article.append(Utilities.escapeXml(title));
// this puts us at the end element for title
processEndElement(name);
}
/**
* @throws IOException
*/
private static void processEndDocument() throws IOException {
if (0 != path.size()) {
throw new IOException("document end before end tag ("
+ path.size() + ") " + path.getLast() + " "
+ xpp.getPositionDescription());
}
if (null != article) {
throw new IOException("article not null at end of document: "
+ title + "; " + article.toString() + "; "
+ xpp.getPositionDescription());
}
if (session != null) {
session.close();
}
}
}
}