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Release 4.0-beta10

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@github-actions github-actions released this 17 May 16:08

New features:

  • Codon models can now use all known genetic codes (https://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi)
  • Equilibrium non-reversible models now work with variable-alignment analyses.
  • Improve help: colorized, improved signatures, more readable types.
  • Add commands bali-phy print <expression>, bali-phy run <Prog> <arg1> <arg2>, bali-phy model <Model> <arg1> <arg2>.

Bug fixes:

  • Fix non-standard genetic codes.
  • Fix specifying Codons(DNA) and Codons(DNA, <code> )
  • Fix density for Exp-transformed distributions like log-normal.

Misc:

  • Refactor Numeric classes Log Double and Prob
  • Allow testing isInfinite x and isNan x in Haskell.