[Bioperl-l] HMMER 3 update

[Jason Stajich]

Brian -

I think a branch is good idea, probably just from master as I presume this code will be too new to weave into the v1 branch. 

However, I'm still not clear on how the new packaging is going to go - but I presume there will be a SearchIO package that we'd update and release when needed? Is there any move to split that off - I know we had settled on the idea that the essential bits of a core would be at least some sequence and blast/homology search parsers.

But would more 'exotic' parsers live in their own package or all things SearchIO would go together?

Glad to see this being work on Brian -- will also have to make sure to capture strand info which we didn't have to deal with for protein queries.

Jason
On Jul 12, 2013, at 1:05 PM, Brian Osborne <bosborne11 at verizon.net> wrote:

> bioperl,
> 
> HMMER 3.1 contains a new program called nhmmer, its output is a bit different from the existing so I need to edit SearchIO::hmmer3.
> 
> Create a new branch for this?
> 
> Brian O.
> 
> 
> 
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Jason Stajich
jason.stajich at gmail.com
jason at bioperl.org