[Biojava-dev] DNATools.forSymbol

[Schreiber, Mark]

Hi -

This method works on a switch statement which doesn't have a case for n
but I don't see any reason I cannot put one in. I may even put one in
for all the IUB ambiguity codes.

- Mark

> -----Original Message-----
> From: Rhett Sutphin [mailto:rhett-sutphin at uiowa.edu] 
> Sent: Friday, 14 March 2003 11:14 a.m.
> To: Schreiber, Mark
> Cc: biojava-dev at biojava.org
> Subject: Re: [Biojava-dev] DNATools.forSymbol
> 
> 
> Hi Mark,
> 
> Thanks for the amazingly quick response.  (With a patch, no less.)
> 
> But I'm still wondering why DNATools.forSymbol('n') should throw an 
> exception while DNATools.createDNA("n") does not.  Is there a reason?
> 
> Rhett
> 
> On Thursday, March 13, 2003, at 03:51  PM, Schreiber, Mark wrote:
> 
> > Hi -
> >
> > There is no good reason other than it is a weakly observed 
> convention
> > to
> > use lower case letters for DNA and RNA and upper case for Protein. I
> > have changed the methods in DNA and RNA tools to be case 
> insensitive. I
> > have commited the changes to biojava-live.
> >
> > - Mark
> >
> >
> >> -----Original Message-----
> >> From: Rhett Sutphin [mailto:rhett-sutphin at uiowa.edu]
> >> Sent: Friday, 14 March 2003 10:44 a.m.
> >> To: biojava-dev at biojava.org
> >> Subject: [Biojava-dev] DNATools.forSymbol
> >>
> >>
> >> Hi,
> >>
> >> I have what might be a stupid question:  why isn't
> >> DNATools.forSymbol(c) the same as
> >> DNATools.createDNA(Character.toString(c)).symbolAt(1) for all c? 
> >> forSymbol only works for lowercase a, c, g, and t, while createDNA 
> >> handles uppercase and lowercase of the whole DNA alphabet, 
> plus gaps.
> >> Is there a special meaning/use of forSymbol that warrants this
> >> difference in behavior?
> >>
> >> Just curious,
> >> Rhett
> 
> 
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