[Bioperl-l] Genbank/EMBL output

[Hilmar Lapp]

It's possible but would require a number of hacks to circumvent the 
semantics of the object model. Those semantics define that a split 
location does not carry strand information. It's the individual 
locations that hold the strand instead. What you're asking for is logic 
that checks whether all sub-locations are on the negative strand, and 
if so promote the complement() operator to the join.

Why do you need the other form?

	-hilmar

On Monday, December 23, 2002, at 02:04  PM, Alex Hudek wrote:

>
> Is it possible to have bioperl output features in Genbank format of the
> form
>
> complement(join(1..50,60..100))
>
> rather than
>
> join(complement(1..50),complement(60..100)) ?
>
> I understand the former form is more common/accepted?
>
>
> Alexander K. Hudek
> The Hospital for Sick Children
> Room 9107, The Centre for Applied Genomics
> 555 University Avenue
> Toronto, Ontario, M5G 1X8, Canada
> Lab phone: 416-813-7638
> Fax: 416-813-8319
> E-mail: alex@genet.sickkids.on.ca
>
>
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-- 
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Hilmar Lapp                            email: lapp at gnf.org
GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
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