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From Ted Yu <yuzhih...@gmail.com>
Subject Re: Hadoop and XML
Date Tue, 20 Jul 2010 15:56:50 GMT
Interesting.
String class is able to handle this scenario:

  348       public String(byte[] data, String encoding) throws
UnsupportedEncodingException {
  349           this(data, 0, data.length, encoding);
  350       }



On Tue, Jul 20, 2010 at 6:01 AM, Jeff Bean <jwfbean@cloudera.com> wrote:

> I think the problem is here:
>
> String valueString = new String(valueText.getBytes(), "UTF-8");
>
> Javadoc for Text says:
>
> *getBytes<
> http://hadoop.apache.org/common/docs/current/api/org/apache/hadoop/io/Text.html#getBytes%28%29
> >
> *()
>          Returns the raw bytes; however, only data up to
> getLength()<
> http://hadoop.apache.org/common/docs/current/api/org/apache/hadoop/io/Text.html#getLength%28%29
> >is
> valid.
>
> So try getting the length, truncating the byte array at the value returned
> by getLength() and THEN converting it to a String.
>
> Jeff
>
> On Mon, Jul 19, 2010 at 9:08 AM, Ted Yu <yuzhihong@gmail.com> wrote:
>
> > For your initial question on Text.set().
> > Text.setCapacity() allocates new byte array. Since keepData is false, old
> > data wouldn't be copied over.
> >
> > On Mon, Jul 19, 2010 at 8:01 AM, Peter Minearo <
> > Peter.Minearo@reardencommerce.com> wrote:
> >
> > > I am already using XmlInputFormat.  The input into the Map phase is not
> > > the problem.  The problem lays in between the Map and Reduce phase.
> > >
> > > BTW - The article is correct.  DO NOT USE StreamXmlRecordReader.
> > > XmlInputFormat is a lot faster.  From my testing, StreamXmlRecordReader
> > > took 8 minutes to read a 1 GB XML document; where as, XmlInputFormat
> was
> > > under 2 minutes. (Using 2 Core, 8GB machines)
> > >
> > >
> > > -----Original Message-----
> > > From: Ted Yu [mailto:yuzhihong@gmail.com]
> > > Sent: Friday, July 16, 2010 9:44 PM
> > > To: general@hadoop.apache.org
> > > Subject: Re: Hadoop and XML
> > >
> > > From an earlier post:
> > > http://oobaloo.co.uk/articles/2010/1/20/processing-xml-in-hadoop.html
> > >
> > > On Fri, Jul 16, 2010 at 3:07 PM, Peter Minearo <
> > > Peter.Minearo@reardencommerce.com> wrote:
> > >
> > > > Moving the variable to a local variable did not seem to work:
> > > >
> > > >
> > > > </PrivateRateSet>vateRateSet>
> > > >
> > > >
> > > >
> > > > public void map(Object key, Object value, OutputCollector output,
> > > > Reporter
> > > > reporter) throws IOException {
> > > >                Text valueText = (Text)value;
> > > >                String valueString = new String(valueText.getBytes(),
> > > > "UTF-8");
> > > >                String keyString = getXmlKey(valueString);
> > > >                 Text returnKeyText = new Text();
> > > >                Text returnValueText = new Text();
> > > >                returnKeyText.set(keyString);
> > > >                returnValueText.set(valueString);
> > > >                output.collect(returnKeyText, returnValueText); }
> > > >
> > > > -----Original Message-----
> > > > From: Peter Minearo [mailto:Peter.Minearo@Reardencommerce.com]
> > > > Sent: Fri 7/16/2010 2:51 PM
> > > > To: general@hadoop.apache.org
> > > > Subject: RE: Hadoop and XML
> > > >
> > > > Whoops....right after I sent it and someone else made a suggestion; I
> > > > realized what question 2 was about.  I can try that, but wouldn't
> that
> > >
> > > > cause Object bloat?  During the Hadoop training I went through; it
> was
> > >
> > > > mentioned to reuse the returning Key and Value objects to keep the
> > > > number of Objects created down to a minimum.  Is this not really a
> > > > valid point?
> > > >
> > > >
> > > >
> > > > -----Original Message-----
> > > > From: Peter Minearo [mailto:Peter.Minearo@Reardencommerce.com]
> > > > Sent: Friday, July 16, 2010 2:44 PM
> > > > To: general@hadoop.apache.org
> > > > Subject: RE: Hadoop and XML
> > > >
> > > >
> > > > I am not using multi-threaded Map tasks.  Also, if I understand your
> > > > second question correctly:
> > > > "Also can you try creating the output key and values in the map
> > > > method(method lacal) ?"
> > > > In the first code snippet I am doing exactly that.
> > > >
> > > > Below is the class that runs the Job.
> > > >
> > > > public class HadoopJobClient {
> > > >
> > > >        private static final Log LOGGER =
> > > > LogFactory.getLog(Prds.class.getName());
> > > >
> > > >        public static void main(String[] args) {
> > > >                JobConf conf = new JobConf(Prds.class);
> > > >
> > > >                conf.set("xmlinput.start", "<PrivateRateSet>");
> > > >                conf.set("xmlinput.end", "</PrivateRateSet>");
> > > >
> > > >                conf.setJobName("PRDS Parse");
> > > >
> > > >                conf.setOutputKeyClass(Text.class);
> > > >                conf.setOutputValueClass(Text.class);
> > > >
> > > >                conf.setMapperClass(PrdsMapper.class);
> > > >                conf.setReducerClass(PrdsReducer.class);
> > > >
> > > >                conf.setInputFormat(XmlInputFormat.class);
> > > >                conf.setOutputFormat(TextOutputFormat.class);
> > > >
> > > >                FileInputFormat.setInputPaths(conf, new
> Path(args[0]));
> > > >                FileOutputFormat.setOutputPath(conf, new
> > > > Path(args[1]));
> > > >
> > > >                // Run the job
> > > >                try {
> > > >                        JobClient.runJob(conf);
> > > >                } catch (IOException e) {
> > > >                        LOGGER.error(e.getMessage(), e);
> > > >                }
> > > >
> > > >        }
> > > >
> > > >
> > > > }
> > > >
> > > >
> > > >
> > > >
> > > > -----Original Message-----
> > > > From: Soumya Banerjee [mailto:soumya.sbanerjee@gmail.com]
> > > > Sent: Fri 7/16/2010 2:29 PM
> > > > To: general@hadoop.apache.org
> > > > Subject: Re: Hadoop and XML
> > > >
> > > > Hi,
> > > >
> > > > Can you please share the code of the job submission client ?
> > > >
> > > > Also can you try creating the output key and values in the map
> > > > method(method
> > > > lacal) ?
> > > > Make sure you are not using multi threaded map task configuration.
> > > >
> > > > map()
> > > > {
> > > > private Text keyText = new Text();
> > > >  private Text valueText = new Text();
> > > >
> > > > //rest of the code
> > > > }
> > > >
> > > > Soumya.
> > > >
> > > > On Sat, Jul 17, 2010 at 2:30 AM, Peter Minearo <
> > > > Peter.Minearo@reardencommerce.com> wrote:
> > > >
> > > > > I have an XML file that has sparse data in it.  I am running a
> > > > > MapReduce Job that reads in an XML file, pulls out a Key from
> within
> > >
> > > > > the XML snippet and then hands back the Key and the XML snippet (as
> > > > > the Value) to the OutputCollector.  The reason is to sort the file
> > > > back into order.
> > > > > Below is the snippet of code.
> > > > >
> > > > > public class XmlMapper extends MapReduceBase implements Mapper {
> > > > >
> > > > >  private Text keyText = new Text();
> > > > >  private Text valueText = new Text();
> > > > >
> > > > >  @SuppressWarnings("unchecked")
> > > > >  public void map(Object key, Object value, OutputCollector output,
> > > > > Reporter reporter) throws IOException {  Text valueText =
> > > > > (Text)value;
> > > >
> > > > > String valueString = new String(valueText.getBytes(), "UTF-8");
> > > > > String keyString = getXmlKey(valueString);
> > > > > getKeyText().set(keyString);  getValueText().set(valueString);
> > > > > output.collect(getKeyText(), getValueText());  }
> > > > >
> > > > >
> > > > >  public Text getKeyText() {
> > > > >  return keyText;
> > > > >  }
> > > > >
> > > > >
> > > > >  public void setKeyText(Text keyText) {  this.keyText = keyText;
 }
> > > > >
> > > > >
> > > > >  public Text getValueText() {
> > > > >  return valueText;
> > > > >  }
> > > > >
> > > > >
> > > > >  public void setValueText(Text valueText) {  this.valueText =
> > > > > valueText;  }
> > > > >
> > > > >
> > > > >  private String getXmlKey(String value) {
> > > > >        // Get the Key from the XML in the value.
> > > > >  }
> > > > >
> > > > > }
> > > > >
> > > > > The XML snippet from the Value is fine when it is passed into the
> > > > > map() method.  I am not changing any data either, just pulling out
> > > > > information for the key.  The problem I am seeing is between the
> Map
> > >
> > > > > phase and the Reduce phase, the XML is getting munged.  For
> Example:
> > > > >
> > > > >  </PrivateRate>
> > > > >  </PrivateRateSet>te>
> > > > >
> > > > > It is my understanding that Hadoop uses the same instance of the
> Key
> > >
> > > > > and Value object when calling the Map method.  What changes is the
> > > > > data within those instances.  So, I ran an experiment where I do
> not
> > >
> > > > > have different Key or Value Text Objects.  I reuse the ones passed
> > > > > into the method, like below:
> > > > >
> > > > > public class XmlMapper extends MapReduceBase implements Mapper {
> > > > >
> > > > >  @SuppressWarnings("unchecked")
> > > > >  public void map(Object key, Object value, OutputCollector output,
> > > > > Reporter reporter) throws IOException {  Text keyText = (Text)key;
> > > > > Text valueText = (Text)value;  String valueString = new
> > > > > String(valueText.getBytes(), "UTF-8");  String keyString =
> > > > > getXmlKey(valueString);  keyText.set(keyString);
> > > > > valueText.set(valueString);  output.collect(keyText, valueText);
 }
> > > > >
> > > > >
> > > > >  private String getXmlKey(String value) {
> > > > >        // Get the Key from the XML in the value.
> > > > >  }
> > > > >
> > > > > }
> > > > >
> > > > > What was interesting about this is the fact that the XML was
> getting
> > >
> > > > > munged within the Map Phase.  When I changed over to the code at
> the
> > >
> > > > > top, the Map phase was fine.  However, the Reduce phase picks up
> the
> > >
> > > > > munged XML.  Trying to debug the problem, I came across this method
> > > > > in
> > > >
> > > > > the Text Object:
> > > > >
> > > > > public void set(byte[] utf8, int start, int len) {
> > > > >    setCapacity(len, false);
> > > > >    System.arraycopy(utf8, start, bytes, 0, len);
> > > > >    this.length = len;
> > > > > }
> > > > >
> > > > > If the "bytes" array had a length of 1000 and the "utf8" array has
> a
> > >
> > > > > length of 500; doing a System.arraycopy() would only copy the first
> > > > > 500 from "utf8" to "bytes" but leave the last 500 in "bytes" alone.
> > > > > Could this be the cause of the XML munging?
> > > > >
> > > > > All of this leads me to a few questions:
> > > > >
> > > > > 1) Has anyone successfully used XML snippets as the data format
> > > > > within
> > > >
> > > > > a MapReduce job; not just reading from the file but used during the
> > > > > shuffle?
> > > > > 2) Is anyone seeing this problem with XML or any other format?
> > > > > 3) Does anyone know what is going on?
> > > > > 4) Is this a bug?
> > > > >
> > > > >
> > > > > Thanks,
> > > > >
> > > > > Peter
> > > > >
> > > > >
> > > > >
> > > >
> > > >
> > > >
> > >
> >
>

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