org.sigpath.bioimport.reaction2
Class Components

java.lang.Object
  org.sigpath.bioimport.reaction2.Components

All Implemented Interfaces:

Serializable

public class Components
extends Object
implements Serializable

Groups complex and modified chemical definitions in SigPath

Version:

$Revision$ $Date$

See Also:

Serialized Form

Constructor Summary

Components()

Method Summary

void	addComplex(Complex vComplex) Method addComplex
void	addComplex(int index, Complex vComplex) Method addComplex
void	addModifiedChemical(int index, ModifiedChemical vModifiedChemical) Method addModifiedChemical
void	addModifiedChemical(ModifiedChemical vModifiedChemical) Method addModifiedChemical
void	clearComplex() Method clearComplex
void	clearModifiedChemical() Method clearModifiedChemical
Enumeration	enumerateComplex() Method enumerateComplex
Enumeration	enumerateModifiedChemical() Method enumerateModifiedChemical
Complex[]	getComplex() Method getComplex
Complex	getComplex(int index) Method getComplex
int	getComplexCount() Method getComplexCount
ModifiedChemical[]	getModifiedChemical() Method getModifiedChemical
ModifiedChemical	getModifiedChemical(int index) Method getModifiedChemical
int	getModifiedChemicalCount() Method getModifiedChemicalCount
boolean	isValid() Method isValid
void	marshal(ContentHandler handler) Method marshal
void	marshal(Writer out) Method marshal
boolean	removeComplex(Complex vComplex) Method removeComplex
boolean	removeModifiedChemical(ModifiedChemical vModifiedChemical) Method removeModifiedChemical
void	setComplex(Complex[] complexArray) Method setComplex
void	setComplex(int index, Complex vComplex) Method setComplex
void	setModifiedChemical(int index, ModifiedChemical vModifiedChemical) Method setModifiedChemical
void	setModifiedChemical(ModifiedChemical[] modifiedChemicalArray) Method setModifiedChemical
static Components	unmarshal(Reader reader) Method unmarshal
void	validate() Method validate

Methods inherited from class java.lang.Object

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

Constructor Detail

Components

public Components()

Method Detail

addComplex

public void addComplex(Complex vComplex)
                throws IndexOutOfBoundsException

Method addComplex

Parameters:

vComplex -

Throws:

IndexOutOfBoundsException

addComplex

public void addComplex(int index,
                       Complex vComplex)
                throws IndexOutOfBoundsException

Method addComplex

Parameters:

index -

vComplex -

Throws:

IndexOutOfBoundsException

addModifiedChemical

public void addModifiedChemical(ModifiedChemical vModifiedChemical)
                         throws IndexOutOfBoundsException

Method addModifiedChemical

Parameters:

vModifiedChemical -

Throws:

IndexOutOfBoundsException

addModifiedChemical

public void addModifiedChemical(int index,
                                ModifiedChemical vModifiedChemical)
                         throws IndexOutOfBoundsException

Method addModifiedChemical

Parameters:

index -

vModifiedChemical -

Throws:

IndexOutOfBoundsException

clearComplex

public void clearComplex()

Method clearComplex

clearModifiedChemical

public void clearModifiedChemical()

Method clearModifiedChemical

enumerateComplex

public Enumeration enumerateComplex()

Method enumerateComplex

Returns:

Enumeration

enumerateModifiedChemical

public Enumeration enumerateModifiedChemical()

Method enumerateModifiedChemical

Returns:

Enumeration

getComplex

public Complex getComplex(int index)
                   throws IndexOutOfBoundsException

Method getComplex

Parameters:

index -

Returns:

Complex

Throws:

IndexOutOfBoundsException

getComplex

public Complex[] getComplex()

Method getComplex

Returns:

Complex

getComplexCount

public int getComplexCount()

Method getComplexCount

Returns:

int

getModifiedChemical

public ModifiedChemical getModifiedChemical(int index)
                                     throws IndexOutOfBoundsException

Method getModifiedChemical

Parameters:

index -

Returns:

ModifiedChemical

Throws:

IndexOutOfBoundsException

getModifiedChemical

public ModifiedChemical[] getModifiedChemical()

Method getModifiedChemical

Returns:

ModifiedChemical

getModifiedChemicalCount

public int getModifiedChemicalCount()

Method getModifiedChemicalCount

Returns:

int

isValid

public boolean isValid()

Method isValid

Returns:

boolean

marshal

public void marshal(Writer out)
             throws MarshalException,
                    ValidationException

Method marshal

Parameters:

out -

Throws:

MarshalException

ValidationException

marshal

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

Method marshal

Parameters:

handler -

Throws:

IOException

MarshalException

ValidationException

removeComplex

public boolean removeComplex(Complex vComplex)

Method removeComplex

Parameters:

vComplex -

Returns:

boolean

removeModifiedChemical

public boolean removeModifiedChemical(ModifiedChemical vModifiedChemical)

Method removeModifiedChemical

Parameters:

vModifiedChemical -

Returns:

boolean

setComplex

public void setComplex(int index,
                       Complex vComplex)
                throws IndexOutOfBoundsException

Method setComplex

Parameters:

index -

vComplex -

Throws:

IndexOutOfBoundsException

setComplex

public void setComplex(Complex[] complexArray)

Method setComplex

Parameters:

complexArray -

setModifiedChemical

public void setModifiedChemical(int index,
                                ModifiedChemical vModifiedChemical)
                         throws IndexOutOfBoundsException

Method setModifiedChemical

Parameters:

index -

vModifiedChemical -

Throws:

IndexOutOfBoundsException

setModifiedChemical

public void setModifiedChemical(ModifiedChemical[] modifiedChemicalArray)

Method setModifiedChemical

Parameters:

modifiedChemicalArray -

unmarshal

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

Method unmarshal

Parameters:

reader -

Returns:

Components

Throws:

MarshalException

ValidationException

validate

public void validate()
              throws ValidationException

Method validate

Throws:

ValidationException