Package de.uni_halle.informatik.biodata.mp.io.parsers.json

Class JSONParser

java.lang.Object

de.uni_halle.informatik.biodata.mp.io.parsers.json.JSONParser

public class JSONParser
extends Object

Constructor Summary

Constructors

Constructor	Description
JSONParser(Registry registry)

Method Summary

Modifier and Type	Method	Description
org.sbml.jsbml.SBMLDocument	parse(File jsonFile)	Creates the ModelBuilder, SBMLDocument and reads the jsonFile as a tree
void	parseAnnotation(org.sbml.jsbml.SBase node, Object annotation)
void	parseCompartments(org.sbml.jsbml.util.ModelBuilder builder, Map<String,String> compartments)
void	parseGene(org.sbml.jsbml.Model model, Gene gene, String id)
void	parseMetabolite(org.sbml.jsbml.Model model, Metabolite metabolite, BiGGId biggId)
void	parseNotes(org.sbml.jsbml.SBase node, Object notes)
void	parseReaction(org.sbml.jsbml.util.ModelBuilder builder, Reaction reaction, String id)

Methods inherited from class java.lang.Object

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

Constructor Details

JSONParser

public JSONParser(Registry registry)

Method Details

parse

public org.sbml.jsbml.SBMLDocument parse(File jsonFile)
                                  throws IOException

Creates the ModelBuilder, SBMLDocument and reads the jsonFile as a tree

Throws:

IOException

parseAnnotation

public void parseAnnotation(org.sbml.jsbml.SBase node,
 Object annotation)

parseNotes

public void parseNotes(org.sbml.jsbml.SBase node,
 Object notes)

parseCompartments

public void parseCompartments(org.sbml.jsbml.util.ModelBuilder builder,
 Map<String,String> compartments)

parseMetabolite

public void parseMetabolite(org.sbml.jsbml.Model model,
 Metabolite metabolite,
 BiGGId biggId)

parseGene

public void parseGene(org.sbml.jsbml.Model model,
 Gene gene,
 String id)

parseReaction

public void parseReaction(org.sbml.jsbml.util.ModelBuilder builder,
 Reaction reaction,
 String id)