[Biojava-l] DNA alphabet token
Thu, 13 Jun 2002 16:12:55 -0400
>I have a simple silly question: Is there any reason that the DNA tokens
>specified in AlphabetManager.xml are lowercase rather than uppercase?
>of the sources we see use uppercase by default.
Have you tried replacing the lower case letters with upper case in the
AlphabetManager.xml? I don't see why this would cause a problem.
I have. It works as you would expect but breaks the AGAVE-XML test (which
tests a lower case input). I was thinking of duplicating the symbolrefs
so that what goes in comes back out (including mixed case, for those apps
that use it) and having the token be case sensitive. I was wondering if
that might break RNA translation though. Is this something I should check
>This can be easily worked around, but not without a cost in terms of
>generation and memory usage.
How so? What do you mean by "string generation"?
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