[BioPython] what should I do next?

[Ewan Birney]

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
>     
> 
> 

-----------------------------------------------------------------
Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
<birney@ebi.ac.uk>. 
-----------------------------------------------------------------