This smells like a bug. Gaps should be unique. Could you mail me an example program and data-file?
Matthew
Lachlan Coin wrote:
Hi, I am trying to read in an alignment, and get a count of frequencies of symbols in columns of the alignment. My problem is that biojava seems to not recognize two gap symbols as being equal, so each time I come across a gap symbol my (probably naive!) implementation puts a new gap symbol in my HashMap, rather than incrementing the overall gap symbol count. Is it possible to set things up so that two gap symbols are equal? I realize that this is probably not the right thing to do for other applications.Thanks a lot, Lachlan _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
-- BioJava Consulting LTD - Support and training for BioJava http://www.biojava.co.uk _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
