org.sigpath.bioimport.reaction2
Class ModelConcentration

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

All Implemented Interfaces:

Serializable

public class ModelConcentration
extends Object
implements Serializable

Selects molecule concentrations in a model

Version:

$Revision$ $Date$

See Also:

Serialized Form

Constructor Summary

ModelConcentration()

Method Summary

void	addMolecule(int index, Molecule vMolecule) Method addMolecule
void	addMolecule(Molecule vMolecule) Method addMolecule
void	clearMolecule() Method clearMolecule
void	deleteIsBuffered() Method deleteIsBuffered
void	deleteIsModelWillProvide() Method deleteIsModelWillProvide
Enumeration	enumerateMolecule() Method enumerateMolecule
String	getDescription() Returns the value of field 'description'.
boolean	getIsBuffered() Returns the value of field 'isBuffered'.
boolean	getIsModelWillProvide() Returns the value of field 'isModelWillProvide'.
Molecule[]	getMolecule() Method getMolecule
Molecule	getMolecule(int index) Method getMolecule
MoleculeConcentration	getMoleculeConcentration() Returns the value of field 'moleculeConcentration'.
int	getMoleculeCount() Method getMoleculeCount
boolean	hasIsBuffered() Method hasIsBuffered
boolean	hasIsModelWillProvide() Method hasIsModelWillProvide
boolean	isValid() Method isValid
void	marshal(ContentHandler handler) Method marshal
void	marshal(Writer out) Method marshal
boolean	removeMolecule(Molecule vMolecule) Method removeMolecule
void	setDescription(String description) Sets the value of field 'description'.
void	setIsBuffered(boolean isBuffered) Sets the value of field 'isBuffered'.
void	setIsModelWillProvide(boolean isModelWillProvide) Sets the value of field 'isModelWillProvide'.
void	setMolecule(int index, Molecule vMolecule) Method setMolecule
void	setMolecule(Molecule[] moleculeArray) Method setMolecule
void	setMoleculeConcentration(MoleculeConcentration moleculeConcentration) Sets the value of field 'moleculeConcentration'.
static ModelConcentration	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

ModelConcentration

public ModelConcentration()

Method Detail

addMolecule

public void addMolecule(Molecule vMolecule)
                 throws IndexOutOfBoundsException

Method addMolecule

Parameters:

vMolecule -

Throws:

IndexOutOfBoundsException

addMolecule

public void addMolecule(int index,
                        Molecule vMolecule)
                 throws IndexOutOfBoundsException

Method addMolecule

Parameters:

index -

vMolecule -

Throws:

IndexOutOfBoundsException

clearMolecule

public void clearMolecule()

Method clearMolecule

deleteIsBuffered

public void deleteIsBuffered()

Method deleteIsBuffered

deleteIsModelWillProvide

public void deleteIsModelWillProvide()

Method deleteIsModelWillProvide

enumerateMolecule

public Enumeration enumerateMolecule()

Method enumerateMolecule

Returns:

Enumeration

getDescription

public String getDescription()

Returns the value of field 'description'. The field 'description' has the following description: Allows you to attach a description to a reaction, molecule, compartment, model or review

Returns:

String

getIsBuffered

public boolean getIsBuffered()

Returns the value of field 'isBuffered'.

Returns:

boolean

getIsModelWillProvide

public boolean getIsModelWillProvide()

Returns the value of field 'isModelWillProvide'.

Returns:

boolean

getMolecule

public Molecule getMolecule(int index)
                     throws IndexOutOfBoundsException

Method getMolecule

Parameters:

index -

Returns:

Molecule

Throws:

IndexOutOfBoundsException

getMolecule

public Molecule[] getMolecule()

Method getMolecule

Returns:

Molecule

getMoleculeConcentration

public MoleculeConcentration getMoleculeConcentration()

Returns the value of field 'moleculeConcentration'. The field 'moleculeConcentration' has the following description: Defines the initial concentration of a molecule in a model

Returns:

MoleculeConcentration

getMoleculeCount

public int getMoleculeCount()

Method getMoleculeCount

Returns:

int

hasIsBuffered

public boolean hasIsBuffered()

Method hasIsBuffered

Returns:

boolean

hasIsModelWillProvide

public boolean hasIsModelWillProvide()

Method hasIsModelWillProvide

Returns:

boolean

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

removeMolecule

public boolean removeMolecule(Molecule vMolecule)

Method removeMolecule

Parameters:

vMolecule -

Returns:

boolean

setDescription

public void setDescription(String description)

Sets the value of field 'description'. The field 'description' has the following description: Allows you to attach a description to a reaction, molecule, compartment, model or review

Parameters:

description - the value of field 'description'.

setIsBuffered

public void setIsBuffered(boolean isBuffered)

Sets the value of field 'isBuffered'.

Parameters:

isBuffered - the value of field 'isBuffered'.

setIsModelWillProvide

public void setIsModelWillProvide(boolean isModelWillProvide)

Sets the value of field 'isModelWillProvide'.

Parameters:

isModelWillProvide - the value of field 'isModelWillProvide'.

setMolecule

public void setMolecule(int index,
                        Molecule vMolecule)
                 throws IndexOutOfBoundsException

Method setMolecule

Parameters:

index -

vMolecule -

Throws:

IndexOutOfBoundsException

setMolecule

public void setMolecule(Molecule[] moleculeArray)

Method setMolecule

Parameters:

moleculeArray -

setMoleculeConcentration

public void setMoleculeConcentration(MoleculeConcentration moleculeConcentration)

Sets the value of field 'moleculeConcentration'. The field 'moleculeConcentration' has the following description: Defines the initial concentration of a molecule in a model

Parameters:

moleculeConcentration - the value of field 'moleculeConcentration'.

unmarshal

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

Method unmarshal

Parameters:

reader -

Returns:

ModelConcentration

Throws:

MarshalException

ValidationException

validate

public void validate()
              throws ValidationException

Method validate

Throws:

ValidationException