AMICI: High-Performance Sensitivity Analysis for Large Ordinary Differential Equation Models

Note that this release requires Python >= 3.11.

Fixes

• Fixed an issue in SBML AlgebraicRule processing leading to import failure if a species occurred in multiple AlgebraicRules

  by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2744

• Fixed a potential segfault when running forward sensitivity analysis for models without state variables

  by @FFroehlich in https://github.com/AMICI-dev/AMICI/pull/2749

• Fixed a dimension bug for presimulation parameters in ExpDataView

  by @FFroehlich in https://github.com/AMICI-dev/AMICI/pull/2746

• Fixed incorrect initialization for initial assignments with explicit time dependence

  by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2779

Features

• AMICI now supports SBML events with use_values_from_trigger_time=true

  by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2741

• AMICI now supports SBML events with constant priorities

  by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2730

Other changes

• doc: Added a caveats section listing some known issues and potentially unexpected behavior in AMICI

  by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2735

• Added warnings for presimulation and steady state simulation with events. So far, events were not fully supported in these modes. This is subject to change.

  by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2755

Full Changelog: https://github.com/AMICI-dev/AMICI/compare/v0.32.0...v0.33.0