org.geneontology.lego.dot

Class LegoDotWriter

java.lang.Object

org.geneontology.lego.dot.LegoDotWriter

All Implemented Interfaces:

LegoRenderer

Deprecated.

@Deprecated
public abstract class LegoDotWriter
extends Object
implements LegoRenderer

Rudimentary implementation of a DOT writer for the LEGO annotations in OWL.

Constructor Summary

Constructors

Constructor and Description
LegoDotWriter(OWLGraphWrapper graph, org.semanticweb.owlapi.reasoner.OWLReasoner reasoner) Deprecated. Create a new writer for the given ontology and reasoner.

Method Summary

Methods

Modifier and Type	Method and Description
protected abstract void	appendLine(CharSequence line) Deprecated. Write a line to the file.
protected void	close() Deprecated. Overwrite this method to implement a custom close() function for the writer.
protected void	open() Deprecated. Overwrite this method to implement a custom open() routine for the writer.
void	render(Collection<org.semanticweb.owlapi.model.OWLNamedIndividual> individuals, String name, boolean renderKey) Deprecated. Render the given individuals (aka set of annotations).
void	renderLego(Collection<LegoNode> nodes, String name, boolean renderKey) Deprecated. Render the given collection of nodes (LegoNode)

Methods inherited from class java.lang.Object

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

Constructor Detail

LegoDotWriter

public LegoDotWriter(OWLGraphWrapper graph,
             org.semanticweb.owlapi.reasoner.OWLReasoner reasoner)

Deprecated.

Create a new writer for the given ontology and reasoner.

Parameters:

graph -

reasoner -

Method Detail

render

public void render(Collection<org.semanticweb.owlapi.model.OWLNamedIndividual> individuals,
          String name,
          boolean renderKey)
            throws IOException,
                   LegoTools.UnExpectedStructureException

Deprecated.

Description copied from interface: LegoRenderer

Render the given individuals (aka set of annotations).

Specified by:

render in interface LegoRenderer

name - name of the graph (optional)

Throws:

IOException

LegoTools.UnExpectedStructureException - thrown, if there are unexpected axioms.

renderLego

public void renderLego(Collection<LegoNode> nodes,
              String name,
              boolean renderKey)
                throws IOException

Deprecated.

Render the given collection of nodes (LegoNode)

Parameters:

nodes -

name - name of the graph (optional)

renderKey -

Throws:

IOException

open

protected void open()
             throws IOException

Deprecated.

Overwrite this method to implement a custom open() routine for the writer.

Throws:

IOException

appendLine

protected abstract void appendLine(CharSequence line)
                            throws IOException

Deprecated.

Write a line to the file. It is expected that the writer appends the appropriate newlines. They are not part of the line.

Parameters:

line -

Throws:

IOException

close

protected void close()

Deprecated.

Overwrite this method to implement a custom close() function for the writer. Guaranteed to be called, also in case of an Exception (try-finally pattern).