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v4.2

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@benfulton benfulton released this 29 Jun 14:21
· 20 commits to master since this release

Added

  • tree: a -i parameter is now supported to load a tree from a file.
  • A wider variety of compiler/operating system combinations are now tested before releasing
  • lambda: a -score parameter has been added which logs the calculated
    log-likelihood for the given set of lambdas.
  • The PGI compiler will now be autodetected and used if available.

Changed

  • Fixed bug where running the optimizer could change the initial values passed to the optimizer.
    (This did not seem to have an effect on the final values but made the optimizer less predictable)
  • load: Fixed occasional crash if the log file specified with the -l parameter is invalid
  • report: Fixed occasional crash if multiple threads were specified in the load command
  • lambda: Fixed crash if there is a species in the family file that does not appear in the tree
  • tree: A warning is now emitted if the tree is not ultrametric (to within 0.01% of the max
    root-to-leaf length)