Package de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2interactions

Class LVL2ModelConverter

java.lang.Object

de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2interactions.LVL2ModelConverter

public class LVL2ModelConverter
extends Object

takes an OWL model and fills the graph with edges, nodes and attributes

Author:

ricardo

Constructor Summary

Constructors

Constructor	Description
LVL2ModelConverter()

Method Summary

Modifier and Type	Method	Description
void	convertLVL2Model(org.biopax.paxtools.model.Model model, Graph g, boolean all)
Graph	getGraph()
void	readInteractionsFromPathway(org.biopax.paxtools.model.Model originalModel, ArrayList<MyPathWay> arrayList)	made for reading all interactions in a biopax level 3 model and writing it to the graph

Methods inherited from class java.lang.Object

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

Constructor Details

LVL2ModelConverter

public LVL2ModelConverter()

Method Details

convertLVL2Model

public void convertLVL2Model(org.biopax.paxtools.model.Model model,
Graph g,
boolean all)
                      throws IllegalArgumentException,
IllegalAccessException,
InvocationTargetException

Throws:

IllegalArgumentException

IllegalAccessException

InvocationTargetException

getGraph

public Graph getGraph()

readInteractionsFromPathway

public void readInteractionsFromPathway(org.biopax.paxtools.model.Model originalModel,
ArrayList<MyPathWay> arrayList)
                                 throws IllegalArgumentException,
IllegalAccessException,
InvocationTargetException

made for reading all interactions in a biopax level 3 model and writing it to the graph

Parameters:

originalModel -

processes -

Throws:

IllegalArgumentException

IllegalAccessException

InvocationTargetException