forwards_initalize now considers transitions from the magical state to dot states - so the very small likelyhood changes we were seeing between forwards & bacwards are gone.  Also, models with a 'hub' dot state will now behave better.
forwards_initalize now considers transitions from the magical state to dot
states - so the very small likelyhood changes we were seeing between
forwards & bacwards are gone.  Also, models with a 'hub' dot state will now
behave better.


git-svn-id: ed25c26de1c5325e8eb0deed0b990ab8af8a4def@672 7c6358e6-4a41-0410-a743-a5b2a554c398

sbliven/biojava,sbliven/biojava,sbliven/biojava