diff --git a/CHANGELOG.md b/CHANGELOG.md index 8c1fd68c5c..c369a258f3 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -2,6 +2,73 @@ ## v0.X Series +### v0.23.0 (2024-03-07) + +**Features** + +* SBML `InitialAssignment` are no longer absorbed into other model expressions, + but are available as parameters or expressions (`w`) in the amici model + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2304, + https://github.com/AMICI-dev/AMICI/pull/2305, + https://github.com/AMICI-dev/AMICI/pull/2345, + https://github.com/AMICI-dev/AMICI/pull/2359 +* Upgraded to SuiteSparse 7.6 + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2316 +* Model expressions `w` are now split into static and dynamic expressions, + and only evaluated as needed + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2303 +* Exposed additional solver settings: + * `Solver.setMaxConvFails()`: maximum number of non-linear solver + convergence failures + * `Solver.setMaxNonlinIters()`: maximum number of non-linear solver + iterations + * `Solver.setMaxStepSize()`: maximum step size + * `Solver.setConstraints()`: for setting (non)negativity/positivity + constraints on state variables + + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2335, + https://github.com/AMICI-dev/AMICI/pull/2360, + https://github.com/AMICI-dev/AMICI/pull/2340 +* Improved debugging info: `ReturnData.{xdot,J}` now contain the respective + values from the timepoint of failure, not the last output timepoint. + NaN/Inf warnings now always include the timepoint at which the issue + occurred. + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2349, + https://github.com/AMICI-dev/AMICI/pull/2347 +* Updated dataframes import/export to include parameter values and scales + by @FFroehlich in https://github.com/AMICI-dev/AMICI/pull/2351 + +**Fixes** + +* CMake: Updated BLAS detection and some minor fixes + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2318 + and https://github.com/AMICI-dev/AMICI/pull/2357 +* Deterministic ordering of source files in generated `CMakeLists.txt` + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2322 +* Fixed size check in `Model::setStateIsNonNegative` + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2332 +* Fixed uncaught C++ exception in `runAmiciSimulation` that may crash Python + in case of invalid values for standard deviations + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2338 +* Fixed missing import in `amici/petab/petab_import.py` + by @plakrisenko in https://github.com/AMICI-dev/AMICI/pull/2342 +* Fixed `ReturnDataView` `AttributeError: messages` + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2341 +* Added a missing return code constant `LSETUP_FAIL` + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2353 +* Fixed in-place building of model wheels + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2352 +* Made is-zero-checks compatible with the upcoming sympy>1.12 + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2350 +* Fixed issues with paths containing blanks for sundials + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2361 +* Added `amici.petab.conditions` to the API documentation + by @PaulJonasJost in https://github.com/AMICI-dev/AMICI/pull/2364 +* Improved type annotations in swig-wrappers + by @dweindl in https://github.com/AMICI-dev/AMICI/pull/2344 + +**Full Changelog**: https://github.com/AMICI-dev/AMICI/compare/v0.22.0...v0.23.0 + ### v0.22.0 (2024-02-23) **Features** diff --git a/version.txt b/version.txt index 2157409059..ca222b7cf3 100644 --- a/version.txt +++ b/version.txt @@ -1 +1 @@ -0.22.0 +0.23.0