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

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

All Implemented Interfaces:

java.io.Serializable

Direct Known Subclasses:

Parameters

public abstract class ParametersType

extends java.lang.Object

implements java.io.Serializable

Version:

$Revision$ $Date$

See Also:

Serialized Form

Constructor Summary

ParametersType()

Method Summary

void	deleteParameters_ScMatch()
void	deleteParameters_ScMismatch()
double	getParameters_Expect()
java.lang.String	getParameters_Filter()
int	getParameters_GapExtend()
int	getParameters_GapOpen()
java.lang.String	getParameters_Matrix()
int	getParameters_ScMatch()
int	getParameters_ScMismatch()
boolean	hasParameters_Expect()
boolean	hasParameters_GapExtend()
boolean	hasParameters_GapOpen()
boolean	hasParameters_ScMatch()
boolean	hasParameters_ScMismatch()
boolean	isValid()
abstract void	marshal(org.xml.sax.DocumentHandler handler)
abstract void	marshal(java.io.Writer out)
void	setParameters_Expect(double parameters_Expect)
void	setParameters_Filter(java.lang.String parameters_Filter)
void	setParameters_GapExtend(int parameters_GapExtend)
void	setParameters_GapOpen(int parameters_GapOpen)
void	setParameters_Matrix(java.lang.String parameters_Matrix)
void	setParameters_ScMatch(int parameters_ScMatch)
void	setParameters_ScMismatch(int parameters_ScMismatch)
void	validate()

Methods inherited from class java.lang.Object

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

Constructor Detail

ParametersType

public ParametersType()

Method Detail

deleteParameters_ScMatch

public void deleteParameters_ScMatch()

deleteParameters_ScMismatch

public void deleteParameters_ScMismatch()

getParameters_Expect

public double getParameters_Expect()

getParameters_Filter

public java.lang.String getParameters_Filter()

getParameters_GapExtend

public int getParameters_GapExtend()

getParameters_GapOpen

public int getParameters_GapOpen()

getParameters_Matrix

public java.lang.String getParameters_Matrix()

getParameters_ScMatch

public int getParameters_ScMatch()

getParameters_ScMismatch

public int getParameters_ScMismatch()

hasParameters_Expect

public boolean hasParameters_Expect()

hasParameters_GapExtend

public boolean hasParameters_GapExtend()

hasParameters_GapOpen

public boolean hasParameters_GapOpen()

hasParameters_ScMatch

public boolean hasParameters_ScMatch()

hasParameters_ScMismatch

public boolean hasParameters_ScMismatch()

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

setParameters_Expect

public void setParameters_Expect(double parameters_Expect)

Parameters:

parameters_Expect -

setParameters_Filter

public void setParameters_Filter(java.lang.String parameters_Filter)

Parameters:

parameters_Filter -

setParameters_GapExtend

public void setParameters_GapExtend(int parameters_GapExtend)

Parameters:

parameters_GapExtend -

setParameters_GapOpen

public void setParameters_GapOpen(int parameters_GapOpen)

Parameters:

parameters_GapOpen -

setParameters_Matrix

public void setParameters_Matrix(java.lang.String parameters_Matrix)

Parameters:

parameters_Matrix -

setParameters_ScMatch

public void setParameters_ScMatch(int parameters_ScMatch)

Parameters:

parameters_ScMatch -

setParameters_ScMismatch

public void setParameters_ScMismatch(int parameters_ScMismatch)

Parameters:

parameters_ScMismatch -

validate

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

org.exolab.castor.xml.ValidationException