Package de.unirostock.sems.bives.sbml.parser

Class SBMLEventAssignment

java.lang.Object

de.unirostock.sems.bives.sbml.parser.SBMLGenericObject

de.unirostock.sems.bives.sbml.parser.SBMLSBase

de.unirostock.sems.bives.sbml.parser.SBMLEventAssignment

public class SBMLEventAssignment
extends SBMLSBase

The Class SBMLEventAssignment. An "event assignment" has effect when the event is executed.

Author:

Martin Scharm

Field Summary

Fields inherited from class de.unirostock.sems.bives.sbml.parser.SBMLGenericObject

documentNode, sbmlModel

Constructor Summary

Constructors

Constructor	Description
SBMLEventAssignment(de.unirostock.sems.xmlutils.ds.DocumentNode documentNode, SBMLModel sbmlModel)	Instantiates a new SBML event assignment.

Method Summary

Modifier and Type	Method	Description
de.unirostock.sems.bives.ds.MathML	getMath()	Gets the math.
SBMLSBase	getVariable()	Gets the variable of interest.
void	reportDelete(de.unirostock.sems.bives.markup.MarkupElement me)	Report delete.
void	reportInsert(de.unirostock.sems.bives.markup.MarkupElement me)	Report insert.
void	reportModification(de.unirostock.sems.bives.algorithm.SimpleConnectionManager conMgmt, SBMLEventAssignment a, SBMLEventAssignment b, de.unirostock.sems.bives.markup.MarkupElement me)	Report modification on this entity.
protected SBMLSBase	resolveVariable(String ref)	Resolve variable.

Methods inherited from class java.lang.Object

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

Methods inherited from class de.unirostock.sems.bives.sbml.parser.SBMLGenericObject

getDocumentNode, getModel

Methods inherited from class de.unirostock.sems.bives.sbml.parser.SBMLSBase

addOntologyLink, flagMetaModifcations, getAnnotation, getMetaId, getNotes, getOntologyLinks, getSBOTerm

Constructor Detail

SBMLEventAssignment

public SBMLEventAssignment(de.unirostock.sems.xmlutils.ds.DocumentNode documentNode,
                           SBMLModel sbmlModel)
                    throws BivesSBMLParseException

Instantiates a new SBML event assignment.

Parameters:

documentNode - the document node encoding this entity in the corresponding XML tree

sbmlModel - the SBML model

Throws:

BivesSBMLParseException - the bives sbml parse exception

Method Detail

resolveVariable

protected final SBMLSBase resolveVariable(String ref)
                                   throws BivesSBMLParseException

Resolve variable.

Parameters:

ref - the reference to a variable name

Returns:

the SBML SBase representing the variable

Throws:

BivesSBMLParseException - the bives sbml parse exception

getVariable

public SBMLSBase getVariable()

Gets the variable of interest.

Returns:

the variable

getMath

public de.unirostock.sems.bives.ds.MathML getMath()

Gets the math.

Returns:

the math

reportModification

public void reportModification(de.unirostock.sems.bives.algorithm.SimpleConnectionManager conMgmt,
                               SBMLEventAssignment a,
                               SBMLEventAssignment b,
                               de.unirostock.sems.bives.markup.MarkupElement me)

Report modification on this entity.

Parameters:

conMgmt - the connection manager

a - the original version

b - the modified version

me - the markup element

reportInsert

public void reportInsert(de.unirostock.sems.bives.markup.MarkupElement me)

Report insert.

Parameters:

me - the me

reportDelete

public void reportDelete(de.unirostock.sems.bives.markup.MarkupElement me)

Report delete.

Parameters:

me - the me