Exemple #1
0
  public static FeatureEvidence createFeatureEvidence(
      String name, CvTerm featureType, Range range) {

    FeatureEvidence feature = new DefaultFeatureEvidence(name, null, featureType);
    if (range != null) {
      feature.getRanges().add(range);
    }
    return feature;
  }
Exemple #2
0
  public static FeatureEvidence createFeatureEvidence(
      String name, CvTerm featureType, Collection<Range> ranges) {

    FeatureEvidence feature = new DefaultFeatureEvidence(name, null, featureType);
    if (ranges != null) {
      feature.getRanges().addAll(ranges);
    }
    return feature;
  }
Exemple #3
0
  public static FeatureEvidence createFeatureEvidence(
      String name, CvTerm featureType, Collection<CvTerm> detectionMethods, Range range) {

    FeatureEvidence feature = new DefaultFeatureEvidence(name, null, featureType);
    if (detectionMethods != null) {
      feature.getDetectionMethods().addAll(detectionMethods);
    }
    if (range != null) {
      feature.getRanges().add(range);
    }
    return feature;
  }
  @Test
  @Ignore
  public void test_write_interaction_inferred()
      throws XMLStreamException, IOException, IllegalRangeException {
    BinaryInteractionEvidence interaction = new DefaultNamedBinaryInteractionEvidence();
    ParticipantEvidence participant =
        new DefaultNamedParticipantEvidence(InteractorUtils.createUnknownBasicInteractor());
    ParticipantEvidence participant2 =
        new DefaultNamedParticipantEvidence(InteractorUtils.createUnknownBasicInteractor());
    ParticipantEvidence participant3 =
        new DefaultNamedParticipantEvidence(InteractorUtils.createUnknownBasicInteractor());
    ParticipantEvidence participant4 =
        new DefaultNamedParticipantEvidence(InteractorUtils.createUnknownBasicInteractor());
    // two inferred interactiosn f1, f2, f3 and f3,f4
    FeatureEvidence f1 = new DefaultFeatureEvidence();
    f1.getRanges().add(RangeUtils.createRangeFromString("1-4"));
    FeatureEvidence f2 = new DefaultFeatureEvidence();
    f2.getRanges().add(RangeUtils.createRangeFromString("1-4"));
    FeatureEvidence f3 = new DefaultFeatureEvidence();
    f1.getLinkedFeatures().add(f2);
    f1.getLinkedFeatures().add(f3);
    f2.getLinkedFeatures().add(f1);
    f2.getLinkedFeatures().add(f3);
    f3.getLinkedFeatures().add(f1);
    f3.getLinkedFeatures().add(f2);
    participant.addFeature(f1);
    participant2.addFeature(f2);
    participant3.addFeature(f3);
    interaction.addParticipant(participant);
    interaction.addParticipant(participant2);
    elementCache.clear();

    XmlNamedBinaryInteractionEvidenceWriter writer =
        new XmlNamedBinaryInteractionEvidenceWriter(createStreamWriter(), this.elementCache);
    writer.write(interaction);
    streamWriter.flush();

    Assert.assertEquals(this.interaction_inferred, output.toString());
  }