Package org.biojava.nbio.core.search.io

Class Result

java.lang.Object
org.biojava.nbio.core.search.io.Result
All Implemented Interfaces:
Iterable<Hit>
Direct Known Subclasses:
BlastResult
public abstract class Result extends Object implements Iterable<Hit>
This class models a search result. You will find one of this for every query sequence specified in the run. Designed by Paolo Pavan. You may want to find my contacts on Github and LinkedIn for code info or discuss major changes. https://github.com/paolopavan
Author:
Paolo Pavan

  • Constructor Details

  • Method Details

    • hashCode

      public int hashCode()
      Overrides:
      hashCode in class Object

    • equals

      public boolean equals(Object obj)
      Experimental. Wants to return an hashcode designed to allow conceptual comparisons of search results. Wants to implement conceptual comparisons of search results. Fields unrelated to search are deliberately not considered.
      Overrides:
      equals in class Object
      Returns:

    • getIterationNumber

      public int getIterationNumber()

    • getQueryID

      public String getQueryID()

    • getQueryDef

      public String getQueryDef()

    • getQueryLength

      public int getQueryLength()

    • getHitCounter

      public int getHitCounter()

    • getProgram

      public String getProgram()

    • getVersion

      public String getVersion()

    • getReference

      public String getReference()

    • getDbFile

      public String getDbFile()

    • getProgramSpecificParametersList

      public Set<String> getProgramSpecificParametersList()

    • getProgramSpecificParameter

      public String getProgramSpecificParameter(String key)

    • getQuerySequence

      public Sequence getQuerySequence()
      returns the reference to the original and whole sequence used to query the database. Available only if the ResultFactory implements setQueryReferences and it was used before the parsing with SearchIO
      Returns:
      Sequence object

    • iterator

      public Iterator<Hit> iterator()
      Specified by:
      iterator in interface Iterable<Hit>