[Biococoa-dev] BCCodon bug (?)

Koen van der Drift kvddrift at earthlink.net
Sun Sep 5 10:35:51 EDT 2004

On Sep 5, 2004, at 8:30 AM, John Timmer wrote:

> Sorry about that - that's a stop codon.  It was decided that we 
> wouldn't
> create a "stop" amino acid (I still think it would be convenient to do 
> so),
> so I used a nil amino acid reference as stop within a BCCodon.  Part 
> of what
> I need to do is to put the headerdoc in place, so this doesn't surprise
> anyone, and to create a BCSequenceCodon in order to provide an 
> interface for
> generating BCSequenceProteins safely (ie - ending the sequence when it 
> hits
> a stop codon).
> And go ahead and change the method name.

So it's ok if I change the * to a -?

BTW, I have no problems with adding another entry in aminoacids.plist 
for a 'stop amino acid', I just had not heard of it and was confused by 
that terminology. If you think it's beneficial for the translation 
code, let's just add it.

- Koen.

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