org.gersteinlab.act.io
Class WigFilesReader

java.lang.Object
  org.gersteinlab.act.io.DataFilesReader
      org.gersteinlab.act.io.WigFilesReader

public class WigFilesReader
extends DataFilesReader

        This class defines a reader of data files in WIG format. See
        http://genome.ucsc.edu/FAQ/FAQformat.html for definition.
        

Field Summary

protected double	doubleValue Double value of the last interval
protected long	intervalStart Starting position of the last interval, 0-based, included
protected java.lang.String	seg Segment of the last interval
protected int	span The span of each interval
protected int	step The step size of the intervals
static int	STEP_FIXED Fixed step format
static int	STEP_VARIABLE Variable step format
protected int	stepType The step type of intervals

Fields inherited from class org.gersteinlab.act.io.DataFilesReader

br

Constructor Summary

WigFilesReader(java.io.Reader rIn)
Create a new reader with source data from an input reader.

Method Summary

Interval

readInterval() Read the next interval from the reader.

Methods inherited from class org.gersteinlab.act.io.DataFilesReader

close, countIntervals, getReader, readIntervals, readIntervals, reset

Methods inherited from class java.lang.Object

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

Field Detail

STEP_FIXED

public static final int STEP_FIXED

Fixed step format

See Also:

Constant Field Values

STEP_VARIABLE

public static final int STEP_VARIABLE

Variable step format

See Also:

Constant Field Values

seg

protected java.lang.String seg

Segment of the last interval

intervalStart

protected long intervalStart

Starting position of the last interval, 0-based, included

doubleValue

protected double doubleValue

Double value of the last interval

step

protected int step

The step size of the intervals

span

protected int span

The span of each interval

stepType

protected int stepType

The step type of intervals

Constructor Detail

WigFilesReader

public WigFilesReader(java.io.Reader rIn)

Create a new reader with source data from an input reader.

Parameters:

rIn - The input reader

Method Detail

readInterval

public Interval readInterval()
                      throws java.io.IOException

Read the next interval from the reader.

Specified by:

readInterval in class DataFilesReader

Returns:

The next interval
null if not more

Throws:

java.io.IOException