[Bioperl-l] Bio::Tools::BPbl2seq : throw() on empty report (fwd)

[Hilmar Lapp]

> -----Original Message-----
> From: Jean-Jack Riethoven [mailto:pow@ebi.ac.uk]
> Sent: Friday, July 05, 2002 8:50 AM
> To: bioperl-l@bioperl.org
> Subject: [Bioperl-l] Bio::Tools::BPbl2seq : throw() on empty report
> (fwd)
> 
> 
> 
> 
> Hi all,
> 
> I am using BPbl2seq to scan a humungous amount of small local 
> alignments,
> and I have a question on the action taken when a report is 
> empty (no hit).
> 
> Currently (latest live from cvs), BPbl2seq throws an 
> exception, halting
> the program. It -used- to be that it just returned undef on 
> next_feature
> (or nextSbjct->nextHSP), which seems to be a lot nicer to me 
> (since we are
> all checking what we get back, right?).

I'm not sure why this behaviour was introduced. To me it seems inappropriate for the module to throw() an exception upon an empty report.

I'm not sure either whether this functionality has been taken over already by a module under the Bio::SearchIO hierarchy, you may want to check. If so, Bio::Tools::BPbl2seq won't be maintained anymore I guess.

	-hilmar