Examples with RawExpressionDataVectorService ubic.gemma.persistence.service.expression.bioAssayData.RawExpressionDataVectorService used on opensource projects

Example 1 with RawExpressionDataVectorService

use of ubic.gemma.persistence.service.expression.bioAssayData.RawExpressionDataVectorService in project Gemma by PavlidisLab.

the class DesignElementDataVectorServiceTest method testFindByQt.

@Test
public void testFindByQt() throws Exception {
    try {
        geoService.setGeoDomainObjectGenerator(new GeoDomainObjectGeneratorLocal(this.getTestFileBasePath("gse432Short")));
        Collection<?> results = geoService.fetchAndLoad("GSE432", false, true, false);
        newee = (ExpressionExperiment) results.iterator().next();
    } catch (AlreadyExistsInSystemException e) {
        newee = (ExpressionExperiment) e.getData();
    }
    newee.setShortName(RandomStringUtils.randomAlphabetic(12));
    expressionExperimentService.update(newee);
    newee = this.expressionExperimentService.thawLite(newee);
    RawExpressionDataVectorService rawService = this.getBean(RawExpressionDataVectorService.class);
    QuantitationType qt = null;
    for (QuantitationType q : newee.getQuantitationTypes()) {
        if (q.getIsPreferred()) {
            qt = q;
            break;
        }
    }
    assertNotNull("QT is null", qt);
    Collection<? extends DesignElementDataVector> preferredVectors = rawService.findRawAndProcessed(qt);
    assertNotNull(preferredVectors);
    assertEquals(40, preferredVectors.size());
}