[Bioperl-l] Bio::SeqIO issue

[Hilmar Lapp]

On Aug 6, 2009, at 12:30 PM, Chris Fields wrote:

> Agreed.  My point is should we worry about adding an exception  
> (which may be a little more user-friendly).  Right now the bad stuff  
> happens silently.

Great point. We don't want silent failures, do we.

>
>> I agree with the not removing newlines in raw format being a bug.
>>
>> 	-hilmar
>
> Acc. to the SeqIO::raw docs, this is a little trickier.  The  
> documented behavior explicitly indicates that each line (sans non- 
> whitespace) is assumed to be a separate sequence, so changing that  
> behavior breaks API.

Ah - true indeed. I like the optional argument feature - that way it's  
easy for the user to choose.

	-hilmar

-- 
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: Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :
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