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

Features:

• Allow overriding model name during PySB import by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1801
• Added repr for parameter mapping classes by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1799
• More informative warning messages for NaNs/Infs by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1798
• Moved sim_steps increment by @plakrisenko in https://github.com/AMICI-dev/AMICI/pull/1806
• Re-arranged application of parameters from ExpData to avoid initial sensitivities error by @dilpath in https://github.com/AMICI-dev/AMICI/pull/1805
• Checking for unused parameters in simulate_petab by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1816
• Add create_parameter_mapping kwarg forwarding by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1820

Other

• Remove constant_species_to_parameters by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1809

Fixes

• Fixed handling of SBML models given as pathlib.Path in `petab_import.import_model_sbml by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1808
• Fixed missing CPU time reset by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1814
• Raise in simulate_petab with scaled_parameters=True problem_parameters=None by @dweindl in https://github.com/AMICI-dev/AMICI/pull/1819

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Full Changelog: https://github.com/AMICI-dev/AMICI/compare/v0.11.29...v0.11.30