org.biopax.paxtools.controller
Class Fetcher

java.lang.Object
  org.biopax.paxtools.controller.Traverser
      org.biopax.paxtools.controller.AbstractTraverser
          org.biopax.paxtools.controller.Fetcher

All Implemented Interfaces:

Visitor

public class Fetcher
extends AbstractTraverser

This class is used to fetch an element (traverse it to obtain its dependent elements) and to add this element into a model using the visitor and traverse functions. FIXME may fail (StackOverFlow) when there is a cycle (see AbstractTraverser; use s.util.Filter)

See Also:

Visitor, Traverser

Field Summary

Fields inherited from class org.biopax.paxtools.controller.Traverser

editorMap, filters, log, visitor

Constructor Summary

Fetcher(EditorMap editorMap, Filter<PropertyEditor>... filters)

Method Summary

java.util.Set<BioPAXElement>	fetch(BioPAXElement element) Returns the element and all its children set.
void	fetch(BioPAXElement element, Model model) Adds the element and all its children to the model.
protected void	visit(java.lang.Object range, BioPAXElement domain, Model model, PropertyEditor editor) Adds the BioPAX element into the model and traverses the element for its dependent elements.

Methods inherited from class org.biopax.paxtools.controller.AbstractTraverser

getVisited, visit

Methods inherited from class org.biopax.paxtools.controller.Traverser

filter, getVisitor, setVisitor, traverse

Methods inherited from class java.lang.Object

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

Constructor Detail

Fetcher

public Fetcher(EditorMap editorMap,
               Filter<PropertyEditor>... filters)

Method Detail

visit

protected void visit(java.lang.Object range,
                     BioPAXElement domain,
                     Model model,
                     PropertyEditor editor)

Adds the BioPAX element into the model and traverses the element for its dependent elements.

Specified by:

visit in class AbstractTraverser

Parameters:

range - is property value

domain - is parent BioPAX element

editor - is the property editor

fetch

public void fetch(BioPAXElement element,
                  Model model)

Adds the element and all its children to the model. This method fails if there are different child objects with the same ID, because normally a good (self-consistent) model does not contain duplicate BioPAX elements. Consider using fetch(BioPAXElement) method instead if you want to get all the child elements anyway.

Parameters:

element - the BioPAX element to be added into the model

model - model into which elements will be added

fetch

public java.util.Set<BioPAXElement> fetch(BioPAXElement element)

Returns the element and all its children set. (This method can return different objects with the same ID!)

Parameters:

element -

model -