Package fr.ens.biologie.genomique.eoulsan.bio.io.hadoop

Class FastqInputFormat

  • public class FastqInputFormat
extends org.apache.hadoop.mapreduce.lib.input.FileInputFormat<org.apache.hadoop.io.Text,​org.apache.hadoop.io.Text>
    This class define an InputFormat for FASTQ files for the Hadoop MapReduce framework.
    Since:
    1.0
    Author:
    Laurent Jourdren

    • Nested Class Summary

      • Nested classes/interfaces inherited from class org.apache.hadoop.mapreduce.lib.input.FileInputFormat

        org.apache.hadoop.mapreduce.lib.input.FileInputFormat.Counter

    • Field Summary

      • Fields inherited from class org.apache.hadoop.mapreduce.lib.input.FileInputFormat

        INPUT_DIR, INPUT_DIR_RECURSIVE, NUM_INPUT_FILES, PATHFILTER_CLASS, SPLIT_MAXSIZE, SPLIT_MINSIZE

    • Method Summary

      All Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      org.apache.hadoop.mapreduce.RecordReader<org.apache.hadoop.io.Text,​org.apache.hadoop.io.Text> createRecordReader​(org.apache.hadoop.mapreduce.InputSplit inputSplit, org.apache.hadoop.mapreduce.TaskAttemptContext taskAttemptContext)  
      protected boolean isSplitable​(org.apache.hadoop.mapreduce.JobContext context, org.apache.hadoop.fs.Path file)  

      • Methods inherited from class org.apache.hadoop.mapreduce.lib.input.FileInputFormat

        addInputPath, addInputPathRecursively, addInputPaths, computeSplitSize, getBlockIndex, getFormatMinSplitSize, getInputDirRecursive, getInputPathFilter, getInputPaths, getMaxSplitSize, getMinSplitSize, getSplits, listStatus, makeSplit, setInputDirRecursive, setInputPathFilter, setInputPaths, setInputPaths, setMaxInputSplitSize, setMinInputSplitSize

    • Constructor Detail

      • FastqInputFormat

        public FastqInputFormat()

    • Method Detail

      • createRecordReader

        public org.apache.hadoop.mapreduce.RecordReader<org.apache.hadoop.io.Text,​org.apache.hadoop.io.Text> createRecordReader​(org.apache.hadoop.mapreduce.InputSplit inputSplit,
                                                                                                                              org.apache.hadoop.mapreduce.TaskAttemptContext taskAttemptContext)
        Specified by:
        createRecordReader in class org.apache.hadoop.mapreduce.InputFormat<org.apache.hadoop.io.Text,​org.apache.hadoop.io.Text>

      • isSplitable

        protected boolean isSplitable​(org.apache.hadoop.mapreduce.JobContext context,
                              org.apache.hadoop.fs.Path file)
        Overrides:
        isSplitable in class org.apache.hadoop.mapreduce.lib.input.FileInputFormat<org.apache.hadoop.io.Text,​org.apache.hadoop.io.Text>