[BioC] findOverlaps error

[Martin Morgan]

On 06/01/2013 07:46 AM, Reema Singh wrote:
> Dear all,
>
> I am getting error when i try to read .bam files. The problem is that i
> don't understand what does not it mean and what I do to solve it. here's
> the error.
>
> "
> Error in queryHits(findOverlaps(query, subject, maxgap = maxgap, minoverlap
> = minoverlap,  :
>    error in evaluating the argument 'x' in selecting a method for function
> 'queryHits': Error in (function (classes, fdef, mtable)  :
>    unable to find an inherited method for function ‘findOverlaps’ for
> signature ‘"list", "GappedAlignments"’

this is saying that findOverlaps does not know what to do when you provide a 
'list' as it's first argument, and a 'GappedAlignments' as its second argument. 
Probably the problem is how you created the 'query' object; aim for one of the 
data types indicated by

   showMethods(findOverlaps)

Martin

> "
>
> I would appreciate any help.
>
> Regards
>
>
>
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