package jalview.datamodel.features;

import jalview.datamodel.SequenceFeature;

import java.util.Collections;
import java.util.HashMap;
import java.util.List;
import java.util.Map;

public class SequenceFeatures
{

  /*
   * map from feature type to structured store of features for that type
   */
  private Map<String, FeatureStore> featureStore;

  /**
   * Constructor
   */
  public SequenceFeatures()
  {
    featureStore = new HashMap<String, FeatureStore>();
  }

  /**
   * Add one sequence feature to the store
   * 
   * @param sf
   */
  public void add(SequenceFeature sf)
  {
    String type = sf.getType();
    if (featureStore.get(type) == null)
    {
      featureStore.put(type, new FeatureStore());
    }
    featureStore.get(type).addFeature(sf);
  }

  /**
   * Returns a (possibly empty) list of features of the given type which overlap
   * the (inclusive) sequence position range
   * 
   * @param type
   * @param from
   * @param to
   * @return
   */
  public List<SequenceFeature> findFeatures(String type, int from,
          int to)
  {
    FeatureStore features = featureStore.get(type);
    if (features == null)
    {
      return Collections.emptyList();
    }
    return features.findOverlappingFeatures(from, to);
  }
}