/*
* BioJava development code
*
* This code may be freely distributed and modified under the
* terms of the GNU Lesser General Public Licence. This should
* be distributed with the code. If you do not have a copy,
* see:
*
* http://www.gnu.org/copyleft/lesser.html
*
* Copyright for this code is held jointly by the individual
* authors. These should be listed in @author doc comments.
*
* For more information on the BioJava project and its aims,
* or to join the biojava-l mailing list, visit the home page
* at:
*
* http://www.biojava.org/
*
*/
package org.biojava.bio.seq.io.agave;
/**
* @author Hanning Ni Doubletwist Inc
* @author Greg Cox
*/
public class AGAVEMapLocation {
private AGAVEMapPosition first ;
private AGAVEMapPosition second ;
private String map_type ;
private String source ;
private String units ;
private String chromosome ;
private String subseq_start ;
private String orientation ;
public AGAVEMapLocation() {
}
public void addPosition(AGAVEMapPosition pos)
{
if( first == null )
first = pos ;
else
second = pos ;
}
public AGAVEMapPosition getPosition1()
{
return first ;
}
public AGAVEMapPosition getPosition2()
{
return second;
}
public void setMapType(String value)
{
map_type = value ;
}
public String getMapType()
{
return map_type ;
}
public void setUnits(String value)
{
units = value ;
}
public String getUnits()
{
return units ;
}
public void setSource(String value)
{
source= value ;
}
public String getSource()
{
return source ;
}
public void setChromosome(String value)
{
chromosome = value ;
}
public String getChromosome()
{
return chromosome ;
}
public void setSubSeqStart(String value)
{
subseq_start = value ;
}
public String getSubSeqStart()
{
return subseq_start ;
}
public void setOrientation(String value)
{
orientation = value ;
}
public String getOrientation()
{
return orientation ;
}
public String toString(String indent, String indent_unit)
{
StringBuffer tmp = new StringBuffer() ;
tmp.append(indent + "" + "\n") ;
if( first != null )
tmp.append ( first.toString(indent + indent_unit, indent_unit) ) ;
if( second != null )
tmp.append( second.toString(indent + indent_unit, indent_unit) ) ;
tmp.append(indent + ""+ "\n" ) ;
return tmp.substring(0) ;
}
public String toString()
{
StringBuffer tmp = new StringBuffer() ;
tmp.append("" + "\n") ;
if( first != null )
tmp.append ( first ) ;
if( second != null )
tmp.append( second ) ;
tmp.append( ""+ "\n" ) ;
return tmp.substring(0) ;
}
}