Dear all, I'm pretty new to BioJava so I may be missing something - I've checked through the list archives without much luck. I've been trying to do some multiple sequence alignments but I've been running into strange errors. To try and find where the problem is, I've just copied the code straight from http://biojava.org/wiki/BioJava:CookBook3:MSA and tried to run it, but I'm still getting an error:
Caused by: java.lang.ClassNotFoundException: org.forester.phylogenyinference.DistanceMatrix It would seem that this is something to do with forester.jar, which I had to download separately (from http://code.google.com/p/forester/) as per http://biojava.org/wiki/BioJava:CookBook#biojava3-alignment - when I look through the jar in Eclipse, there isn't anything named 'phylogenyinference', although there is 'phylogeny', 'phylogeny.data', 'phylogeny.factories' and 'phylogeny.iterators'. Is there something I'm doing wrong, or is it the case that either one of BioJava or forester has been updated and things have broken somewhere (I see the CookBook page was updated in July 2010 but forester was updated just last month)? Either way, any ideas would be much appreciated! Many thanks, Alastair Kilpatrick PhD candidate, School of Informatics, University of Edinburgh _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
