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

Class SBMLParameter

java.lang.Object

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

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

de.unirostock.sems.bives.sbml.parser.SBMLGenericIdNameObject

de.unirostock.sems.bives.sbml.parser.SBMLParameter

All Implemented Interfaces:

de.unirostock.sems.bives.algorithm.DiffReporter, de.unirostock.sems.bives.markup.Markup

public class SBMLParameter
extends SBMLGenericIdNameObject
implements de.unirostock.sems.bives.algorithm.DiffReporter, de.unirostock.sems.bives.markup.Markup

The Class SBMLParameter is used to define a symbol associated with a value; this symbol can then be used in mathematical formulas in a model.

Author:

Martin Scharm

Field Summary

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

id, name

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

documentNode, sbmlModel

Constructor Summary

Constructors

Constructor	Description
SBMLParameter(de.unirostock.sems.xmlutils.ds.DocumentNode documentNode, SBMLModel sbmlModel)	Instantiates a new SBML parameter.

Method Summary

Modifier and Type	Method	Description
double	getValue()	Gets the value.
boolean	isConstant()	Checks if the parameter is constant.
String	markup()
de.unirostock.sems.bives.markup.MarkupElement	reportDelete()
de.unirostock.sems.bives.markup.MarkupElement	reportInsert()
de.unirostock.sems.bives.markup.MarkupElement	reportModification(de.unirostock.sems.bives.algorithm.SimpleConnectionManager conMgmt, de.unirostock.sems.bives.algorithm.DiffReporter docA, de.unirostock.sems.bives.algorithm.DiffReporter docB)

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.SBMLGenericIdNameObject

getID, getName, getNameAndId, getNameOrId

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

SBMLParameter

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

Instantiates a new SBML parameter.

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

getValue

public double getValue()

Gets the value.

Returns:

the value

isConstant

public boolean isConstant()

Checks if the parameter is constant.

Returns:

true, if is constant

markup

public String markup()

Specified by:

markup in interface de.unirostock.sems.bives.markup.Markup

reportModification

public de.unirostock.sems.bives.markup.MarkupElement reportModification(de.unirostock.sems.bives.algorithm.SimpleConnectionManager conMgmt,
                                                                        de.unirostock.sems.bives.algorithm.DiffReporter docA,
                                                                        de.unirostock.sems.bives.algorithm.DiffReporter docB)

Specified by:

reportModification in interface de.unirostock.sems.bives.algorithm.DiffReporter

reportInsert

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

Specified by:

reportInsert in interface de.unirostock.sems.bives.algorithm.DiffReporter

reportDelete

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

Specified by:

reportDelete in interface de.unirostock.sems.bives.algorithm.DiffReporter