Major Modularize import, to import optimization, sampling and profiling separately (#413) Minor Bug fixes in sampling (#412) visualization (#405) PEtab import (#403) Hessian computation (#390) Improve hdf5 error output (#409) Outlaw large new files in GitHub commits (#388
Features: Python package: more flexible HDF5 library localization Extended CI: python tests, preequ...
Update to AMICI 0.10.13, fix API changes (#185). Start using PEtab import from AMICI to be able to ...
Implement multi process parallelization engine for optimization. Introduce PrePostProcessor to more ...
Objective Write solver settings to stream to enable serialization for distributed systems (#308) Re...
New Optimizers: FIDES (#506, #503 # 500) NLopt (#493) Extended PEtab support: PySB import (#437)...
Objectives: New Aesara objectve (#623, #629, #635) Sampling: New Emcee sampler (#606) Fix compat...
Finite Differences: Adaptive finite differences (#671) Add helper function for checking gradients o...
Objective: Basic finite differences (#666) Fix factor 2 in res/fval values (#619) Optimization: ...
Example Notebook for prior functionality (#438) Changed parameter indexing in profiling routines (#4...
Import AMICI (https://github.com/ICB-DCM/AMICI/) models and the PEtab (https://github.com/ICB-DCM/PE...
Tidy up and speed up tests (#265 and others). Basic self-implemented Adaptive Metropolis and Adaptiv...
Python Speed up model import, compilation (#1123, #1112) Improve/Add steady-state solver documentat...
Only compute FIM when sensitivities are available (#194). Fix documentation build (#197). Add suppor...
Add typehints to global functions and classes. Add PetabImporter.rdatas_to_simulation_df function (a...
Rewrite AmiciObjective and PetabAmiciObjective simulation routine to directly use amici.petab_object...
Features: Python package: more flexible HDF5 library localization Extended CI: python tests, preequ...
Update to AMICI 0.10.13, fix API changes (#185). Start using PEtab import from AMICI to be able to ...
Implement multi process parallelization engine for optimization. Introduce PrePostProcessor to more ...
Objective Write solver settings to stream to enable serialization for distributed systems (#308) Re...
New Optimizers: FIDES (#506, #503 # 500) NLopt (#493) Extended PEtab support: PySB import (#437)...
Objectives: New Aesara objectve (#623, #629, #635) Sampling: New Emcee sampler (#606) Fix compat...
Finite Differences: Adaptive finite differences (#671) Add helper function for checking gradients o...
Objective: Basic finite differences (#666) Fix factor 2 in res/fval values (#619) Optimization: ...
Example Notebook for prior functionality (#438) Changed parameter indexing in profiling routines (#4...
Import AMICI (https://github.com/ICB-DCM/AMICI/) models and the PEtab (https://github.com/ICB-DCM/PE...
Tidy up and speed up tests (#265 and others). Basic self-implemented Adaptive Metropolis and Adaptiv...
Python Speed up model import, compilation (#1123, #1112) Improve/Add steady-state solver documentat...
Only compute FIM when sensitivities are available (#194). Fix documentation build (#197). Add suppor...
Add typehints to global functions and classes. Add PetabImporter.rdatas_to_simulation_df function (a...
Rewrite AmiciObjective and PetabAmiciObjective simulation routine to directly use amici.petab_object...
Features: Python package: more flexible HDF5 library localization Extended CI: python tests, preequ...
Update to AMICI 0.10.13, fix API changes (#185). Start using PEtab import from AMICI to be able to ...
Implement multi process parallelization engine for optimization. Introduce PrePostProcessor to more ...