org.colomoto.biolqm.io.sbml

Class SBMLqualExport

java.lang.Object

org.colomoto.biolqm.io.sbml.SBMLqualExport

public class SBMLqualExport
extends Object

SBML export using JSBML and the "qual" extension.

Author:

Aurelien Naldi

Constructor Summary

Constructors

Constructor and Description
SBMLqualExport(LogicalModel model)

Method Summary

Modifier and Type	Method and Description
void	ensureFilled()
void	export(OutputStream out)
SBMLQualBundle	getSBMLBundle()
org.sbml.jsbml.SBMLDocument	getSBMLDocument()
org.sbml.jsbml.ext.qual.QualitativeSpecies	getSpecies(NodeInfo ni)
void	setInitialCondition(byte[] state) Apply an initial condition to the exported model.

Methods inherited from class java.lang.Object

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

Constructor Detail

SBMLqualExport

public SBMLqualExport(LogicalModel model)

Method Detail

export

public void export(OutputStream out)
            throws IOException,
                   XMLStreamException

Throws:

IOException

XMLStreamException

getSBMLDocument

public org.sbml.jsbml.SBMLDocument getSBMLDocument()

getSBMLBundle

public SBMLQualBundle getSBMLBundle()

ensureFilled

public void ensureFilled()

setInitialCondition

public void setInitialCondition(byte[] state)

Apply an initial condition to the exported model.

Parameters:

state - the initial levels for each core component (negative values for unspecified)

getSpecies

public org.sbml.jsbml.ext.qual.QualitativeSpecies getSpecies(NodeInfo ni)