Package org.biopax.paxtools.examples

Class ProteinNameLister

java.lang.Object

org.biopax.paxtools.examples.ProteinNameLister

public class ProteinNameLister
extends Object

This example class processes all the Level2 BioPAX OWL files in the input directory to find all the protein names Notes: - recent fix: it doesn't traverse into the NEXT-STEP property, as it may lead beyond the boundaries of the pathway of interest! - one may prefer using the Paxtools' jenaIO instead of the simpleIO: import org.biopax.paxtools.io.jena.JenaIOHandler; JenaIOHandler handler = new JenaIOHandler(null, BioPAXLevel.L2);

Constructor Summary

Constructors

Constructor	Description
ProteinNameLister()

Method Summary

Modifier and Type	Method	Description
static void	listProteinUnificationXrefsPerPathway(Model model)
static void	listUnificationXrefsPerPathway(Model model)	Here is a more elegant way of doing the previous method!
static void	main(String[] args)

Methods inherited from class java.lang.Object

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

Constructor Details

ProteinNameLister

public ProteinNameLister()

Method Details

main

public static void main(String[] args)

listProteinUnificationXrefsPerPathway

public static void listProteinUnificationXrefsPerPathway(Model model)

listUnificationXrefsPerPathway

public static void listUnificationXrefsPerPathway(Model model)

Here is a more elegant way of doing the previous method!

Parameters:

model - BioPAX object Model