[EMBOSS] Oddcomp behaves oddly ...

[Peter Rice]

Marc Logghe wrote:

> Hi David,
> I am afraid there are some remaining oddities with oddcomp.
> The first 20mer:
> 
>>ZK822.4_36-55
> 
> SAGSSGSNFLSGLQNSSFGQ
> 
> It is clear that there are 7 S residues in this stretch and we were
> looking for 4 or more, so that makes sense.
> However, when you run oddseq again with S count of 5 instead of 4, no
> sequence is reported !

At least 2 bugs here. Firstly, with more than one sequence as input, some 
internal values were not fully reset. Also the word size is used (as 2) before 
it is set to 1.

For 8 Serines in this set I am still only getting one hit out of two. A little 
more investigation needed ... I am getting closer :-)

regards,

Peter