That sounds sensible. In cases like the EMBL/Genbank feature table format, the location line is definitely a function of the whole Feature -- not just the biojava Location. Thomas. On Fri, Sep 21, 2001 at 09:44:30AM -0400, Cox, Greg wrote: > I have implemented location formatting for remote features [i.e. join(5..10, > AL121903:(10..105))], but in doing so I had to introduce a new method to the > SeqFileFormer interface. Since there's an interface change, I'd like some > consensus before comitting to CVS. Right now, the only way to format a > location is via SeqFileFormer.formatLocation(StringBuffer, Location, > Strand). I added SeqFileFormer.formatLocation(Feature), which will detect a > RemoteFeature and format its location properly, and for non-remote features > it extracts the location field and formats that. > > This is needed because the location field of the RemoteFeature class > doesn't completely describe the location of the feature, being the > projection of the feature onto the sequence it's attached to. A field > specific to RemoteFeature (RegionList) is needed to describe the complete > location of the feature. In the next few days, I hope to add the capability > to distinguish between order(a,b) and join(a,b) and this function will be > needed to format an order() style location. _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
