Package psidev.psi.mi.jami.utils.comparator.interactor

Class UnambiguousExactNucleicAcidComparator

java.lang.Object

psidev.psi.mi.jami.utils.comparator.interactor.NucleicAcidComparator

psidev.psi.mi.jami.utils.comparator.interactor.UnambiguousExactNucleicAcidComparator

All Implemented Interfaces:

Comparator<NucleicAcid>

public class UnambiguousExactNucleicAcidComparator
extends NucleicAcidComparator

Unambiguous exact nucleic acids comparator. It will first use UnambiguousExactPolymerBaseComparator to compare the basic interactor properties. If the basic polymer properties are the same, It will look for DDBJ/EMBL/Genbank identifier. If the DDBJ/EMBL/Genbank identifiers are identical, it will look at the Refseq identifiers.

Since:

17/01/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
UnambiguousExactNucleicAcidComparator()	Creates a new DefaultExactNucleicAcidComparator.

Method Summary

Modifier and Type	Method	Description
static boolean	areEquals(NucleicAcid nucleicAcid1, NucleicAcid nucleicAcid2)	Use UnambiguousExactNucleicAcidComparator to know if two nucleic acids are equals.
int	compare(NucleicAcid nucleicAcid1, NucleicAcid nucleicAcid2)	It will first use UnambiguousPolymerComparator to compare the basic interactor properties.
UnambiguousExactPolymerComparator	getInteractorComparator()	Getter for the field interactorComparator.

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.util.Comparator

equals, reversed, thenComparing, thenComparing, thenComparing, thenComparingDouble, thenComparingInt, thenComparingLong

Constructor Detail

UnambiguousExactNucleicAcidComparator

public UnambiguousExactNucleicAcidComparator()

Creates a new DefaultExactNucleicAcidComparator. It will uses a UnambiguousExactInteractorBaseComparator to compare interactor properties and a OrganismTaxIdComparator to compares organism.

Method Detail

compare

public int compare(NucleicAcid nucleicAcid1,
                   NucleicAcid nucleicAcid2)

Description copied from class: NucleicAcidComparator

It will first use UnambiguousPolymerComparator to compare the basic interactor properties. If the basic polymer properties are the same, It will look for DDBJ/EMBL/Genbank identifier. If the DDBJ/EMBL/Genbank identifiers are identical, it will look at the Refseq identifiers.

Specified by:

compare in interface Comparator<NucleicAcid>

Overrides:

compare in class NucleicAcidComparator

Parameters:

nucleicAcid1 - a NucleicAcid object.

nucleicAcid2 - a NucleicAcid object.

Returns:

a int.

getInteractorComparator

public UnambiguousExactPolymerComparator getInteractorComparator()

Getter for the field interactorComparator.

Overrides:

getInteractorComparator in class NucleicAcidComparator

Returns:

a PolymerComparator object.

areEquals

public static boolean areEquals(NucleicAcid nucleicAcid1,
                                NucleicAcid nucleicAcid2)

Use UnambiguousExactNucleicAcidComparator to know if two nucleic acids are equals.

Parameters:

nucleicAcid1 - a NucleicAcid object.

nucleicAcid2 - a NucleicAcid object.

Returns:

true if the two nucleic acids are equal