edu.mssm.crover.tools.blast.parsers.xml.v3
Class Hsp

java.lang.Object
  |
  +--edu.mssm.crover.tools.blast.parsers.xml.v3.HspType
        |
        +--edu.mssm.crover.tools.blast.parsers.xml.v3.Hsp

All Implemented Interfaces:

java.io.Serializable

public class Hsp

extends HspType

implements java.io.Serializable

Version:

$Revision$ $Date$

See Also:

Serialized Form

Constructor Summary

Hsp()

Method Summary

boolean	isValid()
void	marshal(org.xml.sax.DocumentHandler handler)
void	marshal(java.io.Writer out)
static Hsp	unmarshal(java.io.Reader reader)
void	validate()

Methods inherited from class edu.mssm.crover.tools.blast.parsers.xml.v3.HspType

deleteHsp_Gaps, deleteHsp_QueryFrame, getHsp_AlignLen, getHsp_BitScore, getHsp_Evalue, getHsp_Gaps, getHsp_HitFrame, getHsp_HitFrom, getHsp_HitTo, getHsp_Hseq, getHsp_Identity, getHsp_Midline, getHsp_Num, getHsp_Positive, getHsp_Qseq, getHsp_QueryFrame, getHsp_QueryFrom, getHsp_QueryTo, getHsp_Score, hasHsp_AlignLen, hasHsp_Evalue, hasHsp_Gaps, hasHsp_HitFrame, hasHsp_HitFrom, hasHsp_HitTo, hasHsp_Identity, hasHsp_Num, hasHsp_Positive, hasHsp_QueryFrame, hasHsp_QueryFrom, hasHsp_QueryTo, hasHsp_Score, setHsp_AlignLen, setHsp_BitScore, setHsp_Evalue, setHsp_Gaps, setHsp_HitFrame, setHsp_HitFrom, setHsp_HitTo, setHsp_Hseq, setHsp_Identity, setHsp_Midline, setHsp_Num, setHsp_Positive, setHsp_Qseq, setHsp_QueryFrame, setHsp_QueryFrom, setHsp_QueryTo, setHsp_Score

Methods inherited from class java.lang.Object

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

Constructor Detail

Hsp

public Hsp()

Method Detail

isValid

public boolean isValid()

Overrides:

isValid in class HspType

marshal

public void marshal(java.io.Writer out)
             throws org.exolab.castor.xml.MarshalException,
                    org.exolab.castor.xml.ValidationException

Specified by:

marshal in class HspType

Parameters:

out -

org.exolab.castor.xml.MarshalException

org.exolab.castor.xml.ValidationException

marshal

public void marshal(org.xml.sax.DocumentHandler handler)
             throws org.exolab.castor.xml.MarshalException,
                    org.exolab.castor.xml.ValidationException

Specified by:

marshal in class HspType

Parameters:

handler -

org.exolab.castor.xml.MarshalException

org.exolab.castor.xml.ValidationException

unmarshal

public static Hsp unmarshal(java.io.Reader reader)
                     throws org.exolab.castor.xml.MarshalException,
                            org.exolab.castor.xml.ValidationException

Parameters:

reader -

org.exolab.castor.xml.MarshalException

org.exolab.castor.xml.ValidationException

validate

public void validate()
              throws org.exolab.castor.xml.ValidationException

Overrides:

validate in class HspType

org.exolab.castor.xml.ValidationException