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pyPESTO 0.0.12
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@yannikschaelte yannikschaelte released this 06 Apr 12:34
v0.0.12
f9f4a52
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Learn about vigilant mode.
  • Add typehints to global functions and classes.
  • Add PetabImporter.rdatas_to_simulation_df function (all #235).
  • Adapt y scale in waterfall plot if convergence was too good (#236).
  • Clarify that Objective is of type negative log-posterior, for
    minimization (#243).
  • Tidy up AmiciObjective.parameter_mapping as implemented in AMICI now
    (#247).
  • Add MultiThreadEngine implementing multi-threading aside the
    MultiProcessEngine implementing multi-processing (#254).
  • Fix copying and pickling of AmiciObjective (#252, #257).
  • Remove circular dependence history-objective (#254).
  • Fix problem of visualizing results with failed starts (#249).
  • Rework history: make thread-safe, use factory methods, make context-specific
    (#256).
  • Improve PEtab usage example (#258).
  • Define history base contract, enabling different backends (#260).
  • Store optimization results to HDF5 (#261).
  • Simplify tests (#263).

Breaking changes:

  • HistoryOptions passed to pypesto.minimize instead of Objective (#256).
  • GlobalOptimizer renamed to PyswarmOptimizer (#235).
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