[Biojava-l] SymbolTokenization patch

[Thomas Down]

On Wed, Oct 17, 2001 at 10:54:21AM +0100, Matthew Pocock wrote:
> >   - AllSymbolsAlphabet has been removed.  I know some
> >     people (Matthew?) find this very useful, so I should
> >     probably write a replacement.
> 
> 
> Does this one cause you problems? I used to find it usefull for reading 
> in fasta files with arbitrary single char encodings for things like HMM 
> alignments. Nowadays, I tend to just build a parser from the state 
> alphabet of the HMM anyway, so everything works out fine without it.

It's not a problem -- it's just that because the alphabet and
SymbolParser were (by necessity) fairly intimately coupled, it
needed a re-write.  I didn't think it was necessary for demoing
the patch, but I will re-write it before checking anything in.

   Thomas.