On Tue, Jun 19, 2001 at 01:49:34PM +0100, Keith James wrote: > > Related to this, I'm working on Blast/Fasta SAX2 -> Biojava objects > (org.biojava.bio.search.* objects so far, rather than > org.biojava.bio.seq.homol) and was puzzling over where this should > go. Any preferences? Cool. That would be a good thing to get in before the 1.2 freeze. Do you have any idea of timescale, yet? I'd suggest that this code probably /is/ a good candidate for putting in a program.* subpackage, since it's targetted at specific applications (albeit quite nicely abstracted by the SAX parsers). How about we keep the search package reserved for the interfaces (plus any pure-java searchers which might get added in the future)? > As an aside, this means that I'm making necessary changes to > org.biojava.bio.search.* as the hit objects were missing key methods > such as getting the position/strand of the hit on the query and > subject sequences. For some reason they were missing from the original > interfaces. Yes, those interfaces make quite good starting points, but there are plenty of wrinkles -- iron away :). Thomas. _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
