edu.mssm.crover.tools.blast.parsers.xml.v2
Class HspType

java.lang.Object
  |
  +--edu.mssm.crover.tools.blast.parsers.xml.v2.HspType
All Implemented Interfaces:
java.io.Serializable
Direct Known Subclasses:
Hsp

public abstract class HspType
extends java.lang.Object
implements java.io.Serializable

Version:
$Revision: 1.1 $ $Date: 2003/11/19 18:34:54 $
See Also:
Serialized Form

Constructor Summary
HspType()
           
 
Method Summary
 void deleteHsp_Gaps()
           
 int getHsp_AlignLen()
           
 java.math.BigDecimal getHsp_BitScore()
           
 double getHsp_Evalue()
           
 int getHsp_Gaps()
           
 int getHsp_HitFrame()
           
 int getHsp_HitFrom()
           
 int getHsp_HitTo()
           
 java.lang.String getHsp_Hseq()
           
 int getHsp_Identity()
           
 java.lang.String getHsp_Midline()
           
 int getHsp_Num()
           
 int getHsp_Positive()
           
 java.lang.String getHsp_Qseq()
           
 int getHsp_QueryFrame()
           
 int getHsp_QueryFrom()
           
 int getHsp_QueryTo()
           
 int getHsp_Score()
           
 boolean hasHsp_AlignLen()
           
 boolean hasHsp_Evalue()
           
 boolean hasHsp_Gaps()
           
 boolean hasHsp_HitFrame()
           
 boolean hasHsp_HitFrom()
           
 boolean hasHsp_HitTo()
           
 boolean hasHsp_Identity()
           
 boolean hasHsp_Num()
           
 boolean hasHsp_Positive()
           
 boolean hasHsp_QueryFrame()
           
 boolean hasHsp_QueryFrom()
           
 boolean hasHsp_QueryTo()
           
 boolean hasHsp_Score()
           
 boolean isValid()
           
abstract  void marshal(org.xml.sax.DocumentHandler handler)
           
abstract  void marshal(java.io.Writer out)
           
 void setHsp_AlignLen(int hsp_AlignLen)
           
 void setHsp_BitScore(java.math.BigDecimal hsp_BitScore)
           
 void setHsp_Evalue(double hsp_Evalue)
           
 void setHsp_Gaps(int hsp_Gaps)
           
 void setHsp_HitFrame(int hsp_HitFrame)
           
 void setHsp_HitFrom(int hsp_HitFrom)
           
 void setHsp_HitTo(int hsp_HitTo)
           
 void setHsp_Hseq(java.lang.String hsp_Hseq)
           
 void setHsp_Identity(int hsp_Identity)
           
 void setHsp_Midline(java.lang.String hsp_Midline)
           
 void setHsp_Num(int hsp_Num)
           
 void setHsp_Positive(int hsp_Positive)
           
 void setHsp_Qseq(java.lang.String hsp_Qseq)
           
 void setHsp_QueryFrame(int hsp_QueryFrame)
           
 void setHsp_QueryFrom(int hsp_QueryFrom)
           
 void setHsp_QueryTo(int hsp_QueryTo)
           
 void setHsp_Score(int hsp_Score)
           
 void validate()
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

HspType

public HspType()
Method Detail

deleteHsp_Gaps

public void deleteHsp_Gaps()

getHsp_AlignLen

public int getHsp_AlignLen()

getHsp_BitScore

public java.math.BigDecimal getHsp_BitScore()

getHsp_Evalue

public double getHsp_Evalue()

getHsp_Gaps

public int getHsp_Gaps()

getHsp_HitFrame

public int getHsp_HitFrame()

getHsp_HitFrom

public int getHsp_HitFrom()

getHsp_HitTo

public int getHsp_HitTo()

getHsp_Hseq

public java.lang.String getHsp_Hseq()

getHsp_Identity

public int getHsp_Identity()

getHsp_Midline

public java.lang.String getHsp_Midline()

getHsp_Num

public int getHsp_Num()

getHsp_Positive

public int getHsp_Positive()

getHsp_Qseq

public java.lang.String getHsp_Qseq()

getHsp_QueryFrame

public int getHsp_QueryFrame()

getHsp_QueryFrom

public int getHsp_QueryFrom()

getHsp_QueryTo

public int getHsp_QueryTo()

getHsp_Score

public int getHsp_Score()

hasHsp_AlignLen

public boolean hasHsp_AlignLen()

hasHsp_Evalue

public boolean hasHsp_Evalue()

hasHsp_Gaps

public boolean hasHsp_Gaps()

hasHsp_HitFrame

public boolean hasHsp_HitFrame()

hasHsp_HitFrom

public boolean hasHsp_HitFrom()

hasHsp_HitTo

public boolean hasHsp_HitTo()

hasHsp_Identity

public boolean hasHsp_Identity()

hasHsp_Num

public boolean hasHsp_Num()

hasHsp_Positive

public boolean hasHsp_Positive()

hasHsp_QueryFrame

public boolean hasHsp_QueryFrame()

hasHsp_QueryFrom

public boolean hasHsp_QueryFrom()

hasHsp_QueryTo

public boolean hasHsp_QueryTo()

hasHsp_Score

public boolean hasHsp_Score()

isValid

public boolean isValid()

marshal

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

marshal

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

setHsp_AlignLen

public void setHsp_AlignLen(int hsp_AlignLen)
Parameters:
hsp_AlignLen -

setHsp_BitScore

public void setHsp_BitScore(java.math.BigDecimal hsp_BitScore)
Parameters:
hsp_BitScore -

setHsp_Evalue

public void setHsp_Evalue(double hsp_Evalue)
Parameters:
hsp_Evalue -

setHsp_Gaps

public void setHsp_Gaps(int hsp_Gaps)
Parameters:
hsp_Gaps -

setHsp_HitFrame

public void setHsp_HitFrame(int hsp_HitFrame)
Parameters:
hsp_HitFrame -

setHsp_HitFrom

public void setHsp_HitFrom(int hsp_HitFrom)
Parameters:
hsp_HitFrom -

setHsp_HitTo

public void setHsp_HitTo(int hsp_HitTo)
Parameters:
hsp_HitTo -

setHsp_Hseq

public void setHsp_Hseq(java.lang.String hsp_Hseq)
Parameters:
hsp_Hseq -

setHsp_Identity

public void setHsp_Identity(int hsp_Identity)
Parameters:
hsp_Identity -

setHsp_Midline

public void setHsp_Midline(java.lang.String hsp_Midline)
Parameters:
hsp_Midline -

setHsp_Num

public void setHsp_Num(int hsp_Num)
Parameters:
hsp_Num -

setHsp_Positive

public void setHsp_Positive(int hsp_Positive)
Parameters:
hsp_Positive -

setHsp_Qseq

public void setHsp_Qseq(java.lang.String hsp_Qseq)
Parameters:
hsp_Qseq -

setHsp_QueryFrame

public void setHsp_QueryFrame(int hsp_QueryFrame)
Parameters:
hsp_QueryFrame -

setHsp_QueryFrom

public void setHsp_QueryFrom(int hsp_QueryFrom)
Parameters:
hsp_QueryFrom -

setHsp_QueryTo

public void setHsp_QueryTo(int hsp_QueryTo)
Parameters:
hsp_QueryTo -

setHsp_Score

public void setHsp_Score(int hsp_Score)
Parameters:
hsp_Score -

validate

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


Copyright @ 2003 Mount Sinai School of Medicine. All Rights Reserved.