[Biojava-dev] Location overlaps() bug?

[graham etherington (TSL)]

Hi,
I've discovered a problem with the overlaps() method in
org.biojava3.genome.parsers.gff.Location.
It appears that if LocationA overlaps LocationB by 1 nucleotide,
overlaps() returns false instead of true.


Here is the code to replicate it

public static void main(String[] args)
    {
        Location loc1 = new Location(12, 15);
        Location loc2 = new Location(15, 20);
        if (loc1.overlaps(loc2))
        {
            System.out.println("Loc1 overlaps Loc2");
        }
        else
        {
            System.out.println("No overlap found");
        }
    }

BioJava version 3.0.5
    OS OSX 10.6.8


Cheers,
Graham




Dr. Graham Etherington
Bioinformatics Support Officer,
The Sainsbury Laboratory,
Norwich Research Park,
Norwich NR4 7UH.
UK
Tel: +44 (0)1603 450601