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

java.lang.Object
  edu.mssm.crover.tools.blast.parsers.xml.v3.BlastOutput

All Implemented Interfaces:

Serializable

public class BlastOutput
extends Object
implements Serializable

Class BlastOutput.

Version:

$Revision$ $Date$

See Also:

Serialized Form

Constructor Summary

BlastOutput()

Method Summary

void	deleteBlastOutput_queryLen()
String	getBlastOutput_db() Returns the value of field 'blastOutput_db'.
BlastOutput_iterations	getBlastOutput_iterations() Returns the value of field 'blastOutput_iterations'.
BlastOutput_param	getBlastOutput_param() Returns the value of field 'blastOutput_param'.
String	getBlastOutput_program() Returns the value of field 'blastOutput_program'.
String	getBlastOutput_queryDef() Returns the value of field 'blastOutput_queryDef'.
String	getBlastOutput_queryID() Returns the value of field 'blastOutput_queryID'.
int	getBlastOutput_queryLen() Returns the value of field 'blastOutput_queryLen'.
String	getBlastOutput_reference() Returns the value of field 'blastOutput_reference'.
String	getBlastOutput_version() Returns the value of field 'blastOutput_version'.
boolean	hasBlastOutput_queryLen() Method hasBlastOutput_queryLen.
boolean	isValid() Method isValid.
void	marshal(ContentHandler handler)
void	marshal(Writer out)
void	setBlastOutput_db(String blastOutput_db) Sets the value of field 'blastOutput_db'.
void	setBlastOutput_iterations(BlastOutput_iterations blastOutput_iterations) Sets the value of field 'blastOutput_iterations'.
void	setBlastOutput_param(BlastOutput_param blastOutput_param) Sets the value of field 'blastOutput_param'.
void	setBlastOutput_program(String blastOutput_program) Sets the value of field 'blastOutput_program'.
void	setBlastOutput_queryDef(String blastOutput_queryDef) Sets the value of field 'blastOutput_queryDef'.
void	setBlastOutput_queryID(String blastOutput_queryID) Sets the value of field 'blastOutput_queryID'.
void	setBlastOutput_queryLen(int blastOutput_queryLen) Sets the value of field 'blastOutput_queryLen'.
void	setBlastOutput_reference(String blastOutput_reference) Sets the value of field 'blastOutput_reference'.
void	setBlastOutput_version(String blastOutput_version) Sets the value of field 'blastOutput_version'.
static BlastOutput	unmarshal(Reader reader) Method unmarshal.
void	validate()

Methods inherited from class java.lang.Object

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

Constructor Detail

BlastOutput

public BlastOutput()

Method Detail

deleteBlastOutput_queryLen

public void deleteBlastOutput_queryLen()

getBlastOutput_db

public String getBlastOutput_db()

Returns the value of field 'blastOutput_db'.

Returns:

the value of field 'BlastOutput_db'.

getBlastOutput_iterations

public BlastOutput_iterations getBlastOutput_iterations()

Returns the value of field 'blastOutput_iterations'.

Returns:

the value of field 'BlastOutput_iterations'.

getBlastOutput_param

public BlastOutput_param getBlastOutput_param()

Returns the value of field 'blastOutput_param'.

Returns:

the value of field 'BlastOutput_param'.

getBlastOutput_program

public String getBlastOutput_program()

Returns the value of field 'blastOutput_program'.

Returns:

the value of field 'BlastOutput_program'.

getBlastOutput_queryDef

public String getBlastOutput_queryDef()

Returns the value of field 'blastOutput_queryDef'.

Returns:

the value of field 'BlastOutput_queryDef'.

getBlastOutput_queryID

public String getBlastOutput_queryID()

Returns the value of field 'blastOutput_queryID'.

Returns:

the value of field 'BlastOutput_queryID'.

getBlastOutput_queryLen

public int getBlastOutput_queryLen()

Returns the value of field 'blastOutput_queryLen'.

Returns:

the value of field 'BlastOutput_queryLen'.

getBlastOutput_reference

public String getBlastOutput_reference()

Returns the value of field 'blastOutput_reference'.

Returns:

the value of field 'BlastOutput_reference'.

getBlastOutput_version

public String getBlastOutput_version()

Returns the value of field 'blastOutput_version'.

Returns:

the value of field 'BlastOutput_version'.

hasBlastOutput_queryLen

public boolean hasBlastOutput_queryLen()

Method hasBlastOutput_queryLen.

Returns:

true if at least one BlastOutput_queryLen has been added

isValid

public boolean isValid()

Method isValid.

Returns:

true if this object is valid according to the schema

marshal

public void marshal(Writer out)
             throws MarshalException,
                    ValidationException

Parameters:

out -

Throws:

MarshalException - if object is null or if any SAXException is thrown during marshaling

ValidationException - if this object is an invalid instance according to the schema

marshal

public void marshal(ContentHandler handler)
             throws IOException,
                    MarshalException,
                    ValidationException

Parameters:

handler -

Throws:

IOException - if an IOException occurs during marshaling

ValidationException - if this object is an invalid instance according to the schema

MarshalException - if object is null or if any SAXException is thrown during marshaling

setBlastOutput_db

public void setBlastOutput_db(String blastOutput_db)

Sets the value of field 'blastOutput_db'.

Parameters:

blastOutput_db - the value of field 'blastOutput_db'.

setBlastOutput_iterations

public void setBlastOutput_iterations(BlastOutput_iterations blastOutput_iterations)

Sets the value of field 'blastOutput_iterations'.

Parameters:

blastOutput_iterations - the value of field 'blastOutput_iterations'.

setBlastOutput_param

public void setBlastOutput_param(BlastOutput_param blastOutput_param)

Sets the value of field 'blastOutput_param'.

Parameters:

blastOutput_param - the value of field 'blastOutput_param'.

setBlastOutput_program

public void setBlastOutput_program(String blastOutput_program)

Sets the value of field 'blastOutput_program'.

Parameters:

blastOutput_program - the value of field 'blastOutput_program'.

setBlastOutput_queryDef

public void setBlastOutput_queryDef(String blastOutput_queryDef)

Sets the value of field 'blastOutput_queryDef'.

Parameters:

blastOutput_queryDef - the value of field 'blastOutput_queryDef'.

setBlastOutput_queryID

public void setBlastOutput_queryID(String blastOutput_queryID)

Sets the value of field 'blastOutput_queryID'.

Parameters:

blastOutput_queryID - the value of field 'blastOutput_queryID'.

setBlastOutput_queryLen

public void setBlastOutput_queryLen(int blastOutput_queryLen)

Sets the value of field 'blastOutput_queryLen'.

Parameters:

blastOutput_queryLen - the value of field 'blastOutput_queryLen'.

setBlastOutput_reference

public void setBlastOutput_reference(String blastOutput_reference)

Sets the value of field 'blastOutput_reference'.

Parameters:

blastOutput_reference - the value of field 'blastOutput_reference'.

setBlastOutput_version

public void setBlastOutput_version(String blastOutput_version)

Sets the value of field 'blastOutput_version'.

Parameters:

blastOutput_version - the value of field 'blastOutput_version'.

unmarshal

public static BlastOutput unmarshal(Reader reader)
                             throws MarshalException,
                                    ValidationException

Method unmarshal.

Parameters:

reader -

Returns:

the unmarshaled edu.mssm.crover.tools.blast.parsers.xml.v3.BlastOutput

Throws:

MarshalException - if object is null or if any SAXException is thrown during marshaling

ValidationException - if this object is an invalid instance according to the schema

validate

public void validate()
              throws ValidationException

Throws:

ValidationException - if this object is an invalid instance according to the schema