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

Class UnambiguousExactGeneComparator

java.lang.Object

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

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

All Implemented Interfaces:

Comparator<Gene>

public class UnambiguousExactGeneComparator
extends GeneComparator

Unambiguous exact gene comparator. It will first use UnambiguousExactInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier if both are set. If the ensembl identifiers are not both set, it will look at the ensemblGenome identifiers. If at least one ensemblGemome identifiers is not set, it will look at the entrez/gene id. If at least one entrez/gene id is not set, 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
UnambiguousExactGeneComparator()	Creates a new UnambiguousExactGeneComparator.

Method Summary

Modifier and Type	Method	Description
static boolean	areEquals(Gene gene1, Gene gene2)	Use DefaultGeneComparator to know if two genes are equals.
int	compare(Gene gene1, Gene gene2)	It will first use UnambiguousExactInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier if both are set.
UnambiguousExactInteractorBaseComparator	getInteractorComparator()	getInteractorComparator

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

UnambiguousExactGeneComparator

public UnambiguousExactGeneComparator()

Creates a new UnambiguousExactGeneComparator. It will uses a DefaultExatctInteractorBaseComparator to compare interactor properties

Method Detail

compare

public int compare(Gene gene1,
                   Gene gene2)

It will first use UnambiguousExactInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier if both are set. If the ensembl identifiers are not both set, it will look at the ensemblGenome identifiers. If at least one ensemblGemome identifiers is not set, it will look at the entrez/gene id. If at least one entrez/gene id is not set, it will look at the refseq identifiers.

Specified by:

compare in interface Comparator<Gene>

Overrides:

compare in class GeneComparator

Parameters:

gene1 - a Gene object.

gene2 - a Gene object.

Returns:

a int.

getInteractorComparator

public UnambiguousExactInteractorBaseComparator getInteractorComparator()

getInteractorComparator

Overrides:

getInteractorComparator in class GeneComparator

Returns:

a UnambiguousExactInteractorBaseComparator object.

areEquals

public static boolean areEquals(Gene gene1,
                                Gene gene2)

Use DefaultGeneComparator to know if two genes are equals.

Parameters:

gene1 - a Gene object.

gene2 - a Gene object.

Returns:

true if the two genes are equal