Thanks for the input, everyone. Just to update you, the folks developing SP-ML say they don't have a url interface to getting XML results and they don't have a timeline for when they will have it ready. In the meantime, I will assume (uh oh) that the xml format they will have when the url is available is what they have drafted now, with tiny tolerable differences.
Later, G On Wednesday, May 1, 2002, at 12:03 PM, Matthew Pocock wrote: > Hi Guoneng, > > This sounds like a very worthwile project. Do you have any URLs > describing the current state of the SPML format? > > If SPML is an XML language for describing swissprot entries, then the > obvious thing to do is to write some code to convert the xml sax events > into org.biojava.bio.seq.io.SequenceIOListener callbacks. The whole > swissprot database would probably best be encapsulated as an > org.biojava.bio.seq.db.SequenceDBLite instance with some extra API for > querying the database. > > Good luck. Keep us posted. > > Matthew > > Guoneng Zhong wrote: >> Hi, >> I am working on classes that interact with the newly proposed SPML >> format for Swissprot db. I am still trying to figure out if a live >> interface to an xml result exists yet. Waiting for folks at ebi to >> return my email. In the meantime, I am new to developing stuff for >> biojava. I am not sure what most of you and your colleagues would >> expect from my classes. Do I simply let you set search criteria and >> bam, you get a class that encapsulates all the information in the xml >> data? Or do I use some existing interface but create behind the scene >> xml retrieval and parsing so that you don't need to write new code to >> use my classes (with minor changes, of course). if the latter case, >> where are these interfaces that I must conform to? >> Thanks, >> Guoneng >> _______________________________________________ >> Biojava-l mailing list - [EMAIL PROTECTED] >> http://biojava.org/mailman/listinfo/biojava-l > > > _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
