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

Class GeneComparator

java.lang.Object

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

All Implemented Interfaces:

Comparator<Gene>

Direct Known Subclasses:

UnambiguousExactGeneComparator, UnambiguousGeneComparator

public class GeneComparator
extends Object
implements Comparator<Gene>

Unambiguous gene comparator. It will first use UnambiguousInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier (the interactor with non null ensembl identifier will always come first). If the ensembl identifiers are not set, it will look at the ensemblGenome identifiers (the interactor with non null ensembl genome identifier will always come first). If the ensemblGemome identifiers are not set, it will look at the entrez/gene id (the interactor with non null entrez/gene id will always come first). If the entrez/gene ids are not set, it will look at the refseq identifiers (the interactor with non null refseq identifier will always come first).

Since:

15/01/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
GeneComparator(Comparator<Interactor> interactorBaseComparator)	Creates a new UnambiguousGeneComparator.

Method Summary

Modifier and Type	Method	Description
int	compare(Gene gene1, Gene gene2)	It will first use UnambiguousInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier (the interactor with non null ensembl identifier will always come first).
Comparator<Interactor>	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

GeneComparator

public GeneComparator(Comparator<Interactor> interactorBaseComparator)

Creates a new UnambiguousGeneComparator. It will uses a UnambiguousInteractorBaseComparator to compare interactor properties

Parameters:

interactorBaseComparator - a Comparator object.

Method Detail

getInteractorComparator

public Comparator<Interactor> getInteractorComparator()

getInteractorComparator

Returns:

a Comparator object.

compare

public int compare(Gene gene1,
                   Gene gene2)

It will first use UnambiguousInteractorBaseComparator to compare the basic interactor properties If the basic interactor properties are the same, It will look at ensembl identifier (the interactor with non null ensembl identifier will always come first). If the ensembl identifiers are not set, it will look at the ensemblGenome identifiers (the interactor with non null ensembl genome identifier will always come first). If the ensemblGemome identifiers are not set, it will look at the entrez/gene id (the interactor with non null entrez/gene id will always come first). If the entrez/gene ids are not set, it will look at the refseq identifiers (the interactor with non null refseq identifier will always come first).

Specified by:

compare in interface Comparator<Gene>

Parameters:

gene1 - a Gene object.

gene2 - a Gene object.

Returns:

a int.