[Biojava-l] features by location

[Thomas Down]

On Fri, Feb 14, 2003 at 10:10:34AM +0100, Karin Lagesen wrote:
> I have a Sequence which I have stuck several Features onto. I would
> now like to iterate over these features, in the order that they appear
> on the genome (i.e. a Feature from [7,10] comes before [8-20]). I see
> that there is an inner class in Feature called
> Feature.ByLocationComparator, I am just wondering how I am supposed to
> use this (or if I indeed should use this).

FeatureHolders don't have any built-in support for sorting in
arbitrary ways, but that comparator will do what you want:

    List fl = new ArrayList();
    for (Iterator i = seq.features(); i.hasNext(); ) {
        fl.add(i.next());
    }
    Collections.sort(fl, Feature.byLocationOrder);

  Thomas.