[Dynamite] ...getting started...

[Ian Holmes]

On Sun, 5 Mar 2000, Guy Slater wrote:

> > This is really just to get us started on this. We have alot of
> > decisions to make, but the only way we are going to get there
> > is by sending IDL to each other.... ;)
> 
> Should we have some sort of list of interfaces/objects first ?

Probably an overview of the interfaces would be good.

> The stuff below looks like a *lot* for an alphabet,
> what else will there be for substitutions, sequence types etc ?

I think you do need all this stuff for an alphabet.
I think of an alphabet as an object that can convert text representations
of a sequence to & from internal numerical representations.
So the alphabet object is the natural place to put code dealing with 
ambiguous characters.

Not sure what you mean about substitutions & sequence types?

> I don't like this bit - I think it could be confusing
> because everyone else uses "*" for stop codons.

OK ditch the '*' - I copied that from existing code of mine but it's
unnecessary..

Ian