org.expasy.mzjava.proteomics.ms.dbsearch

Class Digest

java.lang.Object

org.expasy.mzjava.proteomics.ms.dbsearch.Digest

All Implemented Interfaces:

Weighable

public final class Digest
extends Object
implements Weighable

A wrapper for Peptide that has a set to hold the ids of the proteins that the peptide belongs to.

This protein id's are stored in a custom collection that has been optimised to use a small amount of ram and cpu.

Version:

sqrt -1

Author:

Oliver Horlacher

Method Summary

Methods

Modifier and Type	Method and Description
void	addProteinId(String proteinId) Add a proteinId.
void	compact() Free up any resources that are no longer needed.
boolean	equals(Object o)
double	getMolecularMass() Return the molecular mass
Peptide	getPeptide() Return the peptide.
Set<String>	getProteinIds() Returns an Immutable set containing the protein ids
int	hashCode()
String	toString()

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Method Detail

equals

public boolean equals(Object o)

Overrides:

equals in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object

addProteinId

public void addProteinId(String proteinId)

Add a proteinId.

Parameters:

proteinId - the id to add

getProteinIds

public Set<String> getProteinIds()

Returns an Immutable set containing the protein ids

Returns:

an Immutable set containing the protein ids

getMolecularMass

public double getMolecularMass()

Description copied from interface: Weighable

Return the molecular mass

Specified by:

getMolecularMass in interface Weighable

Returns:

the weight

getPeptide

public Peptide getPeptide()

Return the peptide.

Returns:

the peptide

compact

public void compact()

Free up any resources that are no longer needed.

toString

public String toString()

Overrides:

toString in class Object