gov.lbl.genome.common.features
Class SuperContig

java.lang.Object
  gov.lbl.genome.common.features.ChromSegment
      gov.lbl.genome.common.features.SuperContig

All Implemented Interfaces:

java.lang.Cloneable, java.lang.Comparable

public class SuperContig
extends ChromSegment

SuperContig is a row of data retrieved from one of the chr%_short tables.

Constructor Summary

SuperContig(int inSuperContigNum, java.lang.String inChromosome, long inStart, long inEnd)
SuperContig

Method Summary

int	getSuperContigNum() get SuperContig Number
java.lang.String	toString() return XML formatted string
java.lang.String	toString(long offset) return XML formatted string

Methods inherited from class gov.lbl.genome.common.features.ChromSegment

add, cloneSegment, compareTo, contains, contains, contains, getChromName, getChromosome, getChromosome, getEnd, getName, getPos, getRealEnd, getStart, hashCode, intersect, isRealChrom, parsePos, parseSpan, positionFormat, setChromosome, setChromosome, setEnd, setRealChrom, setStart, touches

Methods inherited from class java.lang.Object

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

Constructor Detail

SuperContig

public SuperContig(int inSuperContigNum,
                   java.lang.String inChromosome,
                   long inStart,
                   long inEnd)

SuperContig

Parameters:

inSuperContigNum - int

inChromosome - String

inStart - long

inEnd - long

Method Detail

getSuperContigNum

public int getSuperContigNum()

get SuperContig Number

Returns:

int

toString

public java.lang.String toString()

return XML formatted string

Overrides:

toString in class ChromSegment

Returns:

String

toString

public java.lang.String toString(long offset)

return XML formatted string

Overrides:

toString in class ChromSegment

Parameters:

offset - long

Returns:

String