[BioPython] what should I do next?
Ewan Birney
birney@ebi.ac.uk
Wed, 12 Apr 2000 13:11:46 +0100 (BST)
On Wed, 12 Apr 2000, Brad Chapman wrote:
>
> Ewan wrote:
> > With a CORBA client you can run bioperl as a server and then get all
> the
> > bioperl sequence format reading stuff "for free" which is the whole
> idea
> > about CORBA interoperation....
>
> Agreed. We don't need to program a bunch o' corba for biopython to
> talk to biopython :-)
Right.
> What is the status of the bioperl corba server? Last I checked it
> supported reading in a fasta file and getting a primary seq object
> from it. Are there plans to expand this to get the whole idl covered?
> (or have I missed the expansion?--I've only been looking at the
> bioperl-corba-server module and watching the bioperl list). I would be
> very much for getting biopython using all of the nifty bioperl code
> through the interface. Maybe it would be worth my time to pitch in and
> try to help with the bioperl server? (please note my extreme timidness
> at posing this question :)
I am sort of looking for someone who would get excited about the project
to do it. Actually it wont be that hard once you grok corba interfaces...
I have a delayed flight and a laptop.... you never know, in a couple of
hour's time I might have bashed it out...
> I haven't gotten Biojava working to test their interfaces because
> my system (FreeBSD) doesn't run 1.2 yet (although it is coming soon),
> and the Linux version running with emulation libraries doesn't cut it
> with corba (I get annoying CORBA errors on everything I send) but it
> seems from just glancing at the code like they support everything but
> the proposed BioEnv interface.
> I've been trying to read up and get more up to speed on corba
> stuff so I can move on to a level beyond the initial interface I set
> up. For now I've got a lot of code to build up on the client side over
> here to support a nice interface (now that I'm finally starting to get
> a semi-picture of what some of the interfaces here might look like),
> but I'm definately working with interoperability as my primary goal,
> so that we can steal as much coding work as possible from the other
> bio* projects :-)
>
> Brad
>
>
>
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Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
<birney@ebi.ac.uk>.
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