How to use

getScientificName

method

in

org.opencb.opencga.core.models.Project$Organism

  && StringUtils.isEmpty(projectQR.first().getOrganism().getScientificName())) {
objectMap.put(ProjectDBAdaptor.QueryParams.ORGANISM_SCIENTIFIC_NAME.key(),
    parameters.getString(ProjectDBAdaptor.QueryParams.ORGANISM_SCIENTIFIC_NAME.key()));

public static void updateProjectMetadata(StudyConfigurationManager scm, Project.Organism organism, int release)
    throws CatalogException, StorageEngineException {
  String scientificName = AbstractCellBaseVariantAnnotator.toCellBaseSpeciesName(organism.getScientificName());
  scm.lockAndUpdateProject(projectMetadata -> {
    if (projectMetadata == null) {
      projectMetadata = new ProjectMetadata();
    }
    projectMetadata.setSpecies(scientificName);
    projectMetadata.setAssembly(organism.getAssembly());
    projectMetadata.setRelease(release);
    return projectMetadata;
  });
}

    null, null, "GRCh38", null, sessionIdUser).first();
assertEquals("Homo sapiens", pr.getOrganism().getScientificName());
assertEquals("", pr.getOrganism().getCommonName());
assertEquals("GRCh38", pr.getOrganism().getAssembly());
assertEquals("Homo sapiens", update.first().getOrganism().getScientificName());
assertEquals("", update.first().getOrganism().getCommonName());
assertEquals("GRCh38", update.first().getOrganism().getAssembly());
assertEquals("Homo sapiens", update.first().getOrganism().getScientificName());
assertEquals("common", update.first().getOrganism().getCommonName());
assertEquals("GRCh38", update.first().getOrganism().getAssembly());