Package fr.ens.biologie.genomique.eoulsan.modules.expression.hadoop

Class ExpressionReducer

java.lang.Object

org.apache.hadoop.mapreduce.Reducer<org.apache.hadoop.io.Text,org.apache.hadoop.io.LongWritable,org.apache.hadoop.io.Text,org.apache.hadoop.io.LongWritable>

fr.ens.biologie.genomique.eoulsan.modules.expression.hadoop.ExpressionReducer

public class ExpressionReducer
extends org.apache.hadoop.mapreduce.Reducer<org.apache.hadoop.io.Text,org.apache.hadoop.io.LongWritable,org.apache.hadoop.io.Text,org.apache.hadoop.io.LongWritable>

Reducer for the expression estimation.

Since:

1.2

Author:

Claire Wallon

Nested Class Summary

Nested classes/interfaces inherited from class org.apache.hadoop.mapreduce.Reducer

org.apache.hadoop.mapreduce.Reducer.Context

Constructor Summary

Constructors

Constructor	Description
ExpressionReducer()

Method Summary

Modifier and Type	Method	Description
protected void	reduce(org.apache.hadoop.io.Text key, Iterable<org.apache.hadoop.io.LongWritable> values, org.apache.hadoop.mapreduce.Reducer.Context context)	'key': annotation identifier of the feature (gene, mRNA, exon...).

Methods inherited from class org.apache.hadoop.mapreduce.Reducer

cleanup, run, setup

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

ExpressionReducer

public ExpressionReducer()

Method Detail

reduce

protected void reduce(org.apache.hadoop.io.Text key,
                      Iterable<org.apache.hadoop.io.LongWritable> values,
                      org.apache.hadoop.mapreduce.Reducer.Context context)
               throws IOException,
                      InterruptedException

'key': annotation identifier of the feature (gene, mRNA, exon...). 'values': a list of '1', the size of this list is the number of reads found on the feature.

Overrides:

reduce in class org.apache.hadoop.mapreduce.Reducer<org.apache.hadoop.io.Text,org.apache.hadoop.io.LongWritable,org.apache.hadoop.io.Text,org.apache.hadoop.io.LongWritable>

Throws:

IOException

InterruptedException