Examples of TgacDataObjectFactory

uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory
uk.ac.bbsrc.tgac.miso.core.factory
TODO Info @author Rob Davey @since 0.0.2

Examples of uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory

  protected static final Logger log = LoggerFactory.getLogger(EraSubmissionTests.class);
  private DataObjectFactory dataObjectFactory;


  @Before
  public void setUp() {
    dataObjectFactory = new TgacDataObjectFactory();
  }

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Examples of uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory

  protected static final Logger log = LoggerFactory.getLogger(RunTests.class);
  private DataObjectFactory dataObjectFactory;


  @Before
  public void setUp() {
    dataObjectFactory = new TgacDataObjectFactory();
  }

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Examples of uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory

  protected static final Logger log = LoggerFactory.getLogger(PlateTests.class);
  private DataObjectFactory dataObjectFactory;


  @Before
  public void setUp() {
    dataObjectFactory = new TgacDataObjectFactory();
  }

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Examples of uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory

  private MisoNamingScheme<Sample> sampleNamingScheme;
  private MisoNamingScheme<Library> libraryNamingScheme;


  @Before
  public void setUp() {
    dataObjectFactory = new TgacDataObjectFactory();
    sampleNamingScheme = new DefaultSampleNamingScheme();
    libraryNamingScheme = new DefaultLibraryNamingScheme();
  }

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Examples of uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory

    List<Sample> samples = new ArrayList<Sample>();
    OdfTextDocument oDoc = (OdfTextDocument) OdfDocument.loadDocument(inPath);
    OdfTable sampleTable = oDoc.getTableList().get(1);


    if (sampleTable != null) {
      DataObjectFactory df = new TgacDataObjectFactory();
      for (OdfTableRow row : sampleTable.getRowList()) {
        if (row.getRowIndex() != 0) {
          TableTableRowElement ttre = row.getOdfElement();


          Sample s = df.getSample();


          Node n1 = ttre.getChildNodes().item(0);
          if (n1.getFirstChild() != null) {
            s.setAlias(n1.getFirstChild().getTextContent());
          }

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Examples of uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory

    }
  }


  private List<Sample> generateSamples() {
    List<Sample> samples = new ArrayList<Sample>();
    DataObjectFactory dataObjectFactory = new TgacDataObjectFactory();


    for (int i = 1; i < 6; i++) {
      Sample s = dataObjectFactory.getSample();
      s.setId(i);
      s.setName("SAM"+i);
      s.setAlias("MI_S"+i+"_TestSample");
      s.setScientificName("F.bar");
      s.setIdentificationBarcode(s.getName() + "::" + s.getAlias());

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Examples of uk.ac.bbsrc.tgac.miso.core.factory.TgacDataObjectFactory

    Properties props = new Properties();
    props.load(in);


    datasource = new DriverManagerDataSource(props.getProperty("db.url"), props.getProperty("db.username"), props.getProperty("db.password"));


    DataObjectFactory dataObjectFactory = new TgacDataObjectFactory();
    LobHandler lh = new DefaultLobHandler();
    JdbcTemplate template = new JdbcTemplate(datasource);


    //securityDAO = new SQLSecurityDAO();
    securityDAO = new MockSQLSecurityDAO();

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