Class SimpleSeqSimilaritySearchResult

Method Details

• getQuerySequence

  public Sequence getQuerySequence()

  Description copied from interface: SeqSimilaritySearchResult

  Returns the query sequence which was used to perform the search.

  Specified by:

  getQuerySequence in interface SeqSimilaritySearchResult

  Returns:

  the Sequence object used to search the SequenceDB. Never returns null.

• getSequenceDB

  public SequenceDB getSequenceDB()

  Description copied from interface: SeqSimilaritySearchResult

  Returns the sequence database against which the search was performed.

  Specified by:

  getSequenceDB in interface SeqSimilaritySearchResult

  Returns:

  the SequenceDB object against which the search was carried out. Never returns null.

• getSearchParameters

  public Map getSearchParameters()

  Description copied from interface: SeqSimilaritySearchResult

  Returns the search parameters used in the search that produced this search result.

  Specified by:

  getSearchParameters in interface SeqSimilaritySearchResult

  Returns:

  the (immutable) search parameter Map object. May return null.

• getHits

  public List getHits()

  Description copied from interface: SeqSimilaritySearchResult

  Return all hits in this sequence similarity search result. The hits are sorted from best to worst.

  Specified by:

  getHits in interface SeqSimilaritySearchResult

  Returns:

  an (immutable) List of SeqSimilaritySearchHit objects containing all hits in the search result. Never returns null but may return an empty list.

• getAnnotation

  public Annotation getAnnotation()

  getAnnotation returns the Annotation associated with this hit.

  Specified by:

  getAnnotation in interface Annotatable

  Returns:

  an Annotation.

• equals

  public boolean equals(Object other)

  Overrides:

  equals in class Object

• hashCode

  public int hashCode()

  Overrides:

  hashCode in class Object

• toString

  public String toString()

  Overrides:

  toString in class Object

• getChangeSupport

  protected ChangeSupport getChangeSupport(ChangeType ct)

  Description copied from class: AbstractChangeable

  Called to retrieve the ChangeSupport for this object.

  Your implementation of this method should have the following structure:

   ChangeSupport cs = super.getChangeSupport(ct);
  
   if(someForwarder == null && ct.isMatching(SomeInterface.SomeChangeType)) {
     someForwarder = new ChangeForwarder(...
  
     this.stateVariable.addChangeListener(someForwarder, VariableInterface.AChange);
   }
  
   return cs;
   

  It is usual for the forwarding listeners (someForwarder in this example) to be transient and lazily instantiated. Be sure to register & unregister the forwarder in the code that does the ChangeEvent handling in setter methods.

  Overrides:

  getChangeSupport in class AbstractChangeable