autoalign nearly working & nuked print statements
 Committer: Kevin Dalton <kmdalton@maripaludis.Stanford.EDU>

 On branch jsmol
 Changes to be committed:
   (use "git reset HEAD <file>..." to unstage)

	modified:   autoAlign.py
	modified:   fullmsa.py <-- no more print statements
	modified:   water.py <-- no more print statements