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Extended number of states for BEAST 2 outputs

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@jjmccollum jjmccollum released this 08 Jan 03:55
· 11 commits to main since this release

In principle, any number of states should theoretically be permissible in BEAST 2.7 XML inputs, since the states are specified as sequences of probabilities rather than with one-character symbols. But even with sequences encoded in this way, BEAST 2 still requires code maps (for some reason), so we are limited by the space of allowable single-character symbols. Previously, teiphy restricted the set of BEAST state symbols to 0-9 and a-z. This release adds A-Z to the symbol set.