[Bioperl-l] Parse BLAST to find mismatches

[Jason Stajich]

There is no seq_inds method (yet) for genericHSP objects - this is a
stevec specific method for blastHSP objects.  I am porting it over to the
generic ones and adding it to the interface (grr).  I'm going to break
protocol and add it to the branch so this will be part of the forthcoming
1.01 release next week.

-jason
On Thu, 30 May 2002, Ryan Brinkman wrote:

> >I get the following error:
> >Can't locate object method "seq_inds" via package
> >"Bio::Search::HSP::GenericHSP"
> >(perhaps you forgot to load "Bio::Search::HSP::GenericHSP"?) at
> >blast_parser_sm line 16,
> ><GEN1> line 2661.
> >I tried this code on another computer and got the same results.
> >Am I forgetting something?
> >Thanks in advance,
>
> >#!/usr/bin/perl -w
> >use Bio::SearchIO;
>
> >$blastfile ='/home/ken/blastFile';
>
> The error says it all, add the following:
>
> use Bio::Search::HSP::GenericHSP;
>
>
>
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-- 
Jason Stajich
Duke University
jason at cgt.mc.duke.edu