package jalview.ws.slivkaws;

import java.io.IOError;
import java.io.IOException;
import java.util.List;

import jalview.datamodel.AlignmentI;
import jalview.datamodel.SequenceI;
import jalview.ws.api.JPredMutlipleAlignmentServiceI;
import jalview.ws.api.JobId;
import uk.ac.dundee.compbio.slivkaclient.RemoteFile;
import uk.ac.dundee.compbio.slivkaclient.SlivkaClient;
import uk.ac.dundee.compbio.slivkaclient.SlivkaService;

public class SlivkaJPredServiceInstance extends SlivkaWSInstance
    implements JPredMutlipleAlignmentServiceI
{

  public SlivkaJPredServiceInstance(SlivkaClient client,
      SlivkaService service, String action)
  {
    super(client, service, action);
    style = ServiceClient.JPREDWSCLIENT;
  }

  @Override
  public JobId align(List<SequenceI> sequences) throws Throwable
  {
    return super.submit(sequences, null, null);
  }

  @Override
  public AlignmentI getResult(JobId jobId) throws Exception
  {
    List<RemoteFile> files;
    try {
      files = client.getJobResults(jobId.getJobId());
      for (RemoteFile f : files) {
        if (f.getMimeType().equals("application/clustal")
            || f.getMimeType().equals("application/fasta"))
        {
          return readAlignment(f);
        }
      }
    }
    catch (IOException e) {
      throw new IOError(e);
    }
    return null;  
  }
}