Examples of org.biojava.ontology.Ontology

org.biojava.ontology.Ontology
An ontology.
This is just a set of Term objects, and a set of Triple objects describing relationships between these terms. This class does not itself contain any reasoning functionality. Ontology is a collection of facts, or axioms.
@author Thomas Down @author Matthew Pocock @since 1.4 @see org.biojavax.ontology.ComparableOntology

   */
  public Ontology parse(BufferedReader in, OntologyFactory of)
  throws IOException, OntologyException {
    String name = "";
    String description = "";
    Ontology onto = null;


    for(
      String line = in.readLine();
      line != null;
      line = in.readLine()

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            )
  throws ParseException, IOException {
    
     try {
       OntologyFactory factory = OntoTools.getDefaultFactory();
       Ontology ontology = factory.createOntology(ontoName, ontoDescription);
       
           OboFileParser parser = new OboFileParser();
           
           OboFileEventListener handler = new OboFileHandler(ontology);

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Related Classes of org.biojava.ontology.Ontology

org.biojava.ontology.io.OboParser

org.biojava.ontology.io.TabDelimParser

org.biojava.utils.AssertionFailure

org.biojava.utils.ChangeEvent

org.biojava.utils.ChangeSupport

java.util.NoSuchElementException

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