Package com.compomics.util.experiment.identification.protein_sequences.digestion.iterators

Class NoDigestionCombinationIterator

java.lang.Object

com.compomics.util.experiment.identification.protein_sequences.digestion.iterators.NoDigestionCombinationIterator

All Implemented Interfaces:

SequenceIterator

public class NoDigestionCombinationIterator
extends Object
implements SequenceIterator

Iterator for no digestion of a sequence containing amino acid combinations.

Author:

Marc Vaudel

Constructor Summary

Constructors

Constructor	Description
NoDigestionCombinationIterator()	Empty default constructor
NoDigestionCombinationIterator(ProteinIteratorUtils proteinIteratorUtils, String proteinSequence, Double massMin, Double massMax)	Constructor.

Method Summary

Modifier and Type	Method	Description
ExtendedPeptide	getNextPeptide()	Returns the next peptide that can be generated from the iterator.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

NoDigestionCombinationIterator

public NoDigestionCombinationIterator()

Empty default constructor

NoDigestionCombinationIterator

public NoDigestionCombinationIterator(ProteinIteratorUtils proteinIteratorUtils,
 String proteinSequence,
 Double massMin,
 Double massMax)

Constructor.

Parameters:

proteinIteratorUtils - utils for the creation of the peptides

proteinSequence - the sequence to iterate

massMin - the minimal mass of a peptide

massMax - the maximal mass of a peptide

Method Details

getNextPeptide

public ExtendedPeptide getNextPeptide()
                               throws InterruptedException

Description copied from interface: SequenceIterator

Returns the next peptide that can be generated from the iterator. Null if none left.

Specified by:

getNextPeptide in interface SequenceIterator

Returns:

the next peptide that can be generated from the iterator

Throws:

InterruptedException - exception thrown if a thread is interrupted