[Biojava-dev] biojava-acedb status

[Philip E Macmenamin]

Hi, 

As far as I know, BioJava is in a bit of a sorry state wrt ACeDB interface. I had it working away in JSP alright, but I seem to remember that it has no ability to write to the db. Its just really limited... I tried playing with it for a while, and ended up giving up, and using Lincoln Stein's very reasonable perl libs for doing everything with ACeDB. 

So, yeah, I think some one has to go off and actually write the stuff properly before anyone can do much (NetBeans or other) with it.

Philip

----- Original Message -----
From: Kalle Näslund <kalle.naslund at genpat.uu.se>
Date: Thursday, January 8, 2004 2:48 pm
Subject: Re: [Biojava-dev] biojava-acedb status

> Thomas Down wrote:
> 
> >Once upon a time, Rob Brooksbank wrote:
> >  
> >
> >>I am trying to get hold of a biojava-acedb.jar file so that I 
> can mount
> >>it from the NetBeans IDE. I have downloaded the tarball from the 
> cvs and
> >>tried unsuccesfully to build it. I see from a previous thread that
> >>others have had the same problem and no resolution for it has been
> >>reported to the list.
> >>
> >>What is the status of biojava-acedb? It is not included in the 
> current>>release of biojava, has it been superceded by something 
> else?  
> >>    
> >>
> >
> >I'm afraid biojava-acedb is currently orphanware -- I'm not
> >aware of anyone who's currently using it.  The compile errors
> >are due to some changes in the BioJava core APIs.
> >
> >[It was originally developed by Matthew Pocock and myself, mainly
> >for use with human genome data.  That's now available in Ensembl
> >format, though, so I always use that now].
> >
> >It shouldn't be a major job to get the package working.  It's
> >a job that's probably best handled by someone who's actively
> >working with Acedb.
> >
> >Let me know if you need any help with the code.  I'm not familiar
> >with Netbeans, though -- can anyone else help here?
> >
> >  
> >
> I use netbeans, normaly just the basic features it provides ( 
> editor, 
> debugger and so on )
> and there are no problems to write biojava applications with 
> netbeans. 
> So if there are any
> netbeans specific problems, all i can offer is to share my limited 
> experience, hopefully it
> will be enough.
> 
> Kalle
> 
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