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@ethangreen-dev ethangreen-dev released this 29 Jun 18:56
· 1200 commits to main since this release
v1.6.1
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GillesPy2 Release v1.6.1 Changelog

Changes

  • Updated the StartHere.ipynb notebook in the examples/ directory to reference up-to-date documentation and better reflect modern use cases of GillesPy2.
  • Added checks to ensure that SBML models with features not supported by GillesPy2 cannot be loaded.
  • Updated documentation at stochss.github.io/GillesPy2 -- check it out!

Fixes

  • Fixed crash caused by the GillesPy2 Model referencing functions deprecated in release v1.6.0
  • Fixed invalid behavior where higher-order reactions would use the incorrect propensity functions.
  • Fixed broken links in README.md to reference up-to-date documentation.

Technical Changes

  • PR #549: Fixed a crash in Model#get_best_solver_algo caused by the usage of a deprecated function.
  • PR #550: Fixed an issue where higher-order reactions use the incorrect propensity function.
  • PR #561: Updated broken links in the README.md
  • PR #562: Fixed invalid Sphinx documentation generation in source files with invalid reST-format docstrings.
  • PR #553: Added ability to set reaction rate to a string.
  • PR #554: Added Model to test suite which tests all the possible features of a GillesPy2 Model.
  • PR #555: Added additional check to SBMLImport#__get_kinetic_law to ensure SBML Reactions without propensity functions cannot be loaded.
  • PR #556: Updated and refactored the StartHere.ipynb example notebook.
  • GH #558: Updated docsite to use gh-pages branch, updated documentation to v1.6.1
  • PR #559: Tweaked generated documentation to be more readable.
  • PR #568: Added license header to source files.
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