package jalview.ext.ensembl;

import jalview.datamodel.AlignmentI;
import jalview.datamodel.SequenceFeature;
import jalview.datamodel.SequenceI;

public class EnsemblProtein extends EnsemblSeqProxy
{

  public EnsemblProtein()
  {
    super();
  }

  @Override
  public String getDbName()
  {
    return "ENSEMBL (Protein)";
  }

  @Override
  protected EnsemblSeqType getSourceEnsemblType()
  {
    return EnsemblSeqType.PROTEIN;
  }

  /**
   * Returns false, as this fetcher does not retrieve DNA sequences.
   */
  @Override
  public boolean isDnaCoding()
  {
    return false;
  }

  /**
   * Test query is to the protein translation of transcript ENST00000288602
   */
  @Override
  public String getTestQuery()
  {
    return "ENSP00000288602";
  }

  /**
   * Overrides base class method to do nothing - genomic features are not
   * applicable to the protein product sequence
   */
  @Override
  protected void addFeaturesAndProduct(String accId, AlignmentI alignment,
          SequenceI genomicSequence)
  {
  }

  @Override
  protected EnsemblFeatureType[] getFeaturesToFetch()
  {
    // not applicable - can't fetch genomic features for a protein sequence
    return null;
  }

  @Override
  protected boolean identifiesSequence(SequenceFeature sf, String accId)
  {
    // not applicable - protein sequence is not a 'subset' of genomic sequence
    return false;
  }

}