DatabaseDocument.java

                           "="+alias.getSynonym().getName());
        }*/
        
        System.out.println(" "); 
      }
    }
    catch(SQLException sqle)
    {
      sqle.printStackTrace();
    }
    catch(RuntimeException re)
    {
      re.printStackTrace();
    }
    catch(ConnectException e)
    {
      e.printStackTrace();
    }
  }

  public Document getParent()
  {
    return null;
  }
  
  /**
   * Find from a list the FeatureLoc with a given srcFeature
   * @param locs
   * @param srcfeature_id
   * @return
   */
  public static FeatureLoc getFeatureLoc(List locs, int srcfeature_id)
  {
    for(int i=0; i<locs.size(); i++)
    {
      FeatureLoc loc = (FeatureLoc)locs.get(i);
      if(loc.getFeatureBySrcFeatureId().getFeatureId() == srcfeature_id)
        return loc;
    }
    return null;
  }


  public String getSrcFeatureId()
  {
    return srcFeatureId;
  }


  private JPasswordField getPfield()
  {
    return pfield;
  }


  /**
   * Return true if this looks like a single schema postgres
   * database
   * @return
   */
  public boolean isSingleSchema()
  {
    return singleSchema;
  }
  
  /**
   * Ensure exon featurelocs are in the correct order
   */
  class LocationComarator implements Comparator
  {

    public int compare(Object o1, Object o2)
    {
      int loc1 = ((FeatureLoc)o1).getFmin().intValue();
      int loc2 = ((FeatureLoc)o2).getFmin().intValue();
      
      if(loc2 == loc1)
        return 0;
      int strand = ((FeatureLoc)o1).getStrand().intValue();
      
      if(strand < 0)
      {
        if(loc2 > loc1)
          return 1;
        else
          return -1;
      }
      else
      {
        if(loc2 > loc1)
          return -1;
        else
          return 1;
      }
    } 
  }
  
  class CvTermThread extends Thread 
  {
    private GmodDAO dao;
    CvTermThread(final GmodDAO dao) 
    {
      this.dao = dao;
    }

    public void run() 
    {
      getCvterms(dao);
    }
  }

  public void setRange(Range range)
  {
    this.range = range;
  }


  public Hashtable getIdFeatureStore()
  {
    return idFeatureStore;
  }


  public boolean isLazyFeatureLoad()
  {
    return lazyFeatureLoad;
  }


  public void setLazyFeatureLoad(boolean lazyFeatureLoad)
  {
    this.lazyFeatureLoad = lazyFeatureLoad;
  }
}