Package org.neuroml.importer.sbml

Class SBMLImporter

java.lang.Object

org.neuroml.importer.sbml.SBMLImporter

public class SBMLImporter
extends Object

Field Summary

Fields

Modifier and Type	Field	Description
static String	tscaleName

Constructor Summary

Constructors

Constructor	Description
SBMLImporter()

Method Summary

Modifier and Type	Method	Description
static org.lemsml.jlems.core.type.Lems	convertSBMLToLEMS(File sbmlFile, float simDuration, float simDt)
static org.lemsml.jlems.core.type.Lems	convertSBMLToLEMS(File sbmlFile, float simDuration, float simDt, File dirForResults)
static File	convertSBMLToLEMSFile(File sbmlFile, float simDuration, float simDt, boolean comment)
static void	main(String[] args)
static String	replaceFactorial(String formula)
static String	replaceOperators(String formula)
static String	replaceTime(String formula)
static void	useUnits(boolean units)

Methods inherited from class java.lang.Object

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

Field Detail

tscaleName

public static String tscaleName

Constructor Detail

SBMLImporter

public SBMLImporter()

Method Detail

useUnits

public static void useUnits(boolean units)

convertSBMLToLEMS

public static org.lemsml.jlems.core.type.Lems convertSBMLToLEMS(File sbmlFile,
                                                                float simDuration,
                                                                float simDt)
                                                         throws org.lemsml.jlems.core.sim.LEMSException,
                                                                XMLStreamException,
                                                                org.lemsml.jlems.core.sim.ParseException,
                                                                IOException,
                                                                org.sbml.jsbml.SBMLException,
                                                                org.sbml.jsbml.text.parser.ParseException,
                                                                UnsupportedSBMLFeature

Throws:

org.lemsml.jlems.core.sim.LEMSException

XMLStreamException

org.lemsml.jlems.core.sim.ParseException

IOException

org.sbml.jsbml.SBMLException

UnsupportedSBMLFeature

convertSBMLToLEMS

public static org.lemsml.jlems.core.type.Lems convertSBMLToLEMS(File sbmlFile,
                                                                float simDuration,
                                                                float simDt,
                                                                File dirForResults)
                                                         throws XMLStreamException,
                                                                org.lemsml.jlems.core.sim.ParseException,
                                                                IOException,
                                                                org.sbml.jsbml.SBMLException,
                                                                org.sbml.jsbml.text.parser.ParseException,
                                                                org.lemsml.jlems.core.sim.LEMSException,
                                                                UnsupportedSBMLFeature

Throws:

XMLStreamException

org.lemsml.jlems.core.sim.ParseException

IOException

org.sbml.jsbml.SBMLException

org.lemsml.jlems.core.sim.LEMSException

UnsupportedSBMLFeature

convertSBMLToLEMSFile

public static File convertSBMLToLEMSFile(File sbmlFile,
                                         float simDuration,
                                         float simDt,
                                         boolean comment)
                                  throws org.sbml.jsbml.SBMLException,
                                         XMLStreamException,
                                         org.lemsml.jlems.core.sim.ParseException,
                                         IOException,
                                         org.sbml.jsbml.text.parser.ParseException,
                                         org.lemsml.jlems.core.sim.LEMSException,
                                         UnsupportedSBMLFeature

Throws:

org.sbml.jsbml.SBMLException

XMLStreamException

org.lemsml.jlems.core.sim.ParseException

IOException

org.lemsml.jlems.core.sim.LEMSException

UnsupportedSBMLFeature

main

public static void main(String[] args)
                 throws Exception

Throws:

Exception

replaceTime

public static String replaceTime(String formula)

replaceOperators

public static String replaceOperators(String formula)

replaceFactorial

public static String replaceFactorial(String formula)