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Major update with lots of cool new stuff...

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@molpopgen molpopgen released this 01 Jun 19:58

Bug fixes:

  • Fixed bug in :func:fwdpy11.sampling.DataMatrix.selected that returned wrong data in best case scenario and could
    have caused crash in worst case.
    (e715fb7).
  • Fix bug recording fixation times. If a population was evolved multiple times, fixation times from the later rounds of
    evolution were incorrect.
    (9db14d8)
  • Fix issue #1, related to fixations in quantitative trait sims. (6a27386)
  • The "label" field of a diploid is now initialized upon constructing a population.

API and back-end changes:

  • Added :func:fwdpy11.sampling.matrix_to_sample and :func:fwdpy11.sampling.separate_samples_by_loci. (i639c8de999679140fad6a976ff6c1996b25444aa)
  • Custom stateless fitness/genetic value calculations may now be implemented with a minimal amount of C++ code. See
    :ref:customgvaluecpp.
    (a75166d)
  • Custom fitness/genetic value calculations now allowed in pure Python, but they are quite slow (for now). See
    :ref:customgvalues. (5549286)
  • Stateful trait value models enabled for qtrait sims. (161dfce)
  • Refactor evolution functions so that stateful fitness models behave as expected. Enable compiling in a debug mode.
    Fix bug in operator== for diploid type. (a726c05)
  • fwdpy11.util added, providing :func:fwdpy11.util.add_mutation. (17b92db)
  • Simulations now parameterized using classes in fwdpy11.model_params. (18e261c) and (eda7390)
  • Added multi-locus simulation of quantitative traits.(fcad8de)
  • Refactoring of type names. (632477c)
  • Refactoring internals of single-region fitnes/trait value typess. (d55d636)
  • Allow selected mutations to be retained in fwdpy11.wright_fisher.evolve_regions_sampler_fitness. (dcc1f2f)