[Bioperl-l] Bio::SeqFeatureI issues

[Hilmar Lapp]

I promoted all 4 to SeqFeatureI. If there is no consensus on 
attach_seq() being on the interface I'll remove it again. I.e., 
those who feel uncomfortable with this, speak up now ...

	-hilmar

On Thursday, September 26, 2002, at 01:27 AM, Ewan Birney wrote:

>
>
> On Wed, 25 Sep 2002, Hilmar Lapp wrote:
>
>> Neither seqname() nor seq() nor entire_seq() are on SeqFeatureI, but
>> I'm sure are used all over the place as if they were (in fact, they
>> are even used in decorating methods on SeqFeatureI).
>
> I thought all three were in SeqFeatureI - these should be for sure.
>
>>
>> Somehow we've got used to treat everything in SeqFeature::Generic as
>> present in every implementation of SeqFeatureI ...
>>
>> Not good. I suggest to promote all three to Bio::SeqFeatureI.
>> Similarly, attach_seq() should also be promoted. Anyone got
>> objections, or has anyone thoughts why this may be a bad idea?
>>
>
> attach_seq() i think is about object creation/modification, and so is
> implementation specific. Do you think it has to be in the interface?
>
>
>
>> 	-hilmar
>> --
>> -------------------------------------------------------------
>> Hilmar Lapp                            email: lapp at gnf.org
>> GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
>> -------------------------------------------------------------
>>
>> _______________________________________________
>> Bioperl-l mailing list
>> Bioperl-l@bioperl.org
>> http://bioperl.org/mailman/listinfo/bioperl-l
>>
>
>
--
-------------------------------------------------------------
Hilmar Lapp                            email: lapp at gnf.org
GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
-------------------------------------------------------------