[Bioperl-l] SimpleAlign changes

[Jason Stajich]

Awesome Heikki.  I'll run some tests when I get back to my desk next week.
This is really great stuff.
-Jason

On Fri, 11 May 2001, Heikki Lehvaslaiho wrote:

> I've commited the changes.
> 
> Depreciated methods should not be called within bioperl. They will
> print a warning if called. There is a remote chance that ClustalW or
> TCoffee modules contains some, but I do not have the programs
> installed.  Somebody else please check.
> 
> As suggested, I did not change the name of the method
> Bio::LocatableSeq::get_nse.
> 
> Bio::SimpleAlign::purge is the only method left in that package that
> needs tests.
> 
> The IO methods are now removed. Bio::AlignIO is the only way to io
> SimpleAlign alignmets.
> 
> I wrote a new, runnable synopsis.
> 
> 	-Heikki
> 
> 

Jason Stajich
jason@chg.mc.duke.edu
Center for Human Genetics
Duke University Medical Center 
http://www.chg.duke.edu/