Example #1
0
  @BeforeClass
  /** Creates a MultipleArrayData and fills it with fake data for testing. */
  public static void beforeClass() {
    data = new MultipleArrayData();

    int geneNumber = 5;
    int expNumber = 4;

    assert (data.isAnnotationLoaded() == false);
    ArrayList<ISlideData> features = new ArrayList<ISlideData>();
    ISlideData sd = new SlideData();
    sd.getSlideMetaData().setFieldNames(new String[] {FIELD_NAME_1, FIELD_NAME_2});
    for (int i = 0; i < geneNumber; i++) {
      MevAnnotation ann = new MevAnnotation();
      ann.setCloneID("clone " + i);
      AffySlideDataElement asde =
          new AffySlideDataElement(
              "test " + i,
              new int[] {1, 2},
              new int[] {2, 1},
              new float[] {1.5f, 2.5f},
              new String[] {"testann " + i, "moretestann" + i},
              ann);
      sd.addSlideDataElement(asde);
    }
    features.add(sd);

    for (int i = 0;
        i < expNumber;
        i++) { // add four items to the Features set of slidedata, bringing the size to 5
      FloatSlideData fsd = new FloatSlideData(sd.getSlideMetaData());
      for (int j = 0; j < geneNumber; j++) {
        fsd.setIntensities(j, .2f, -.2f);
      }
      features.add(fsd);
    }
    data.setFeaturesList(features);
  }
Example #2
0
 @Test
 /**
  * Tests MultipleArrayData.getFieldNames(). This method should currently only return the field
  * names for the annotation loaded into the old annotation model.
  */
 public void testGetFieldNames() {
   String[] allFilledAnnotationFields = data.getFieldNames();
   if (!allFilledAnnotationFields[0].equals(FIELD_NAME_1))
     fail("getAllFilledAnnotationFields()[0] is " + allFilledAnnotationFields[0]);
   if (!allFilledAnnotationFields[1].equals(FIELD_NAME_2))
     fail("getAllFilledAnnotationFields()[1] is " + allFilledAnnotationFields[1]);
   if (!allFilledAnnotationFields[2].equals(AnnotationFieldConstants.PROBE_ID))
     fail("getAllFilledAnnotationFields()[2] is " + allFilledAnnotationFields[2]);
 }
Example #3
0
 @Test
 public void testExperimentSize() {
   assert (data.getFeaturesCount() == 4);
 }
Example #4
0
 @Test
 public void testFeaturesSize() {
   assert (data.getFeaturesCount() == 5);
 }