Amici

Python
* Skip unnecessary expressions in pysb models (1185)
* MSVC compiler support (this time for real... 1152)

CI
* Implement MSVC tests (1152)
* Rename and group GitHub actions (1186)
* Fix release deployment (1186)

Python
* Fix simplification for pysb models (1168)
* Pass verbosity flags to pysb network generation (1173)
* Enable experimental pysb-petab support (1175)
* Add installation instructions for Fedora (1177)
* Implement support for SBML rate-references (1180)

C++
* Refactoring (1162, 1163)

CI
* Move majority of tests to Github Actions (1166, 1160)
* Improve reporting of skipped tests in SBML testsuite (1183)

Python
* Speed up model import, compilation (1123, 1112)
* Improve/Add steady-state solver documentation (1102)
* Improve extension import (1141)
* Bugfixes SBML import (1135, 1134, 1145, 1154)
* Fixed issue that prevented simplification (1158)

C++
* Bugfixes (1121, 1125, 1131, 1132, 1136)
* Enable openMP by default (1118)
* Improve memoy footprint for simulations with replicates (1153)
* Improve steady-state solver and add option to to adjoint-steadystate hybrid (1143, 1099, 1129, 1146)

CI
* Store build artifacts from github actions (1138)

Python
* Upgrade to sympy 1.6.0, which is now required minimum version (1098, 1103)
* Speed up model import
* Speed-up computation of sx0, reduce file size (1109)
* Replace terribly slow sympy.MutableDenseMatrix.is_zero_matrix by custom implementation (1104)
* speedup dataframe creation in `get*AsDataFrame` (1088)
* Allow caching edatas for simulate_petab (1106)
* Fix wrong deprecation warning (Fixes 1093)
* Fix segmentation faults in NewtonSolver under certain conditions (1089, 1090, 1097)
* fix wrong power function call in `unscale_parameter` (1094)
* Fix MathML conversion (1086)
* Fix deepcopy of SymPy objects (1091)

Matlab
* handle empty rdata->{pre|post}eq_numlinsteps (Closes 1113), which previously made the matlab interface unusable
* Fix generation of compileMexFile.m for matlab compilation of python code (1115)

C++
* Reduce memory requirements and speedup compilation of large models (1105)
* Place generated code into own namespace (937) (1112)
* Fix several msvc compiler warnings (1116) (Note that MSVC support is still experimental) **breaking change for users of C++ interface**
* Fix swig warning: ensure base class ContextManager is known before use (Fixes 1092) (1101)

CI
* Don't install/run valgrind on travis CI (done with github actions… (1111)

Python:

- **Implement support for variable compartments (1036)**
- Better handling of constant species (1047)
- **Better handling of C++ enums, this makes `amici.SensitivityMethod_forward` available as `amici.SensitivityMethod.forward` (1042)**
- Improve installation routines (1055, 1056, 1058, 1076)
- Add option to reduce memory usage (1044)
- **Fix handling of symbolic expressions in nested rules (1081, 1069)**

Library:

- Update Sundials to 5.2.0 (1039)
- Update SuiteSparse to 5.4.0 (1040)
- Refactor use of ReturnData, now completely created post-hoc (1002)
- **Fix propagation of reinitialization in ExpData constructor (1041)**
- **Fix issue where InternalSensitivityParameter was sometimes not set (1075)**
- **Fix or disable certain combinations of equilibraition, presimulation and adjoint sensitivity analysis**

CI:

- Move from Codacy to Sonarcloud (1065)
- Run SBML Testsuite when appropriate (1058)

Library:
* Fix: Handle paths with blanks in build scripts
* Feature: Add function to write amici::Solver settings to HDF5 (1023)
* Fix: typehints (1018, 1022)
* Refactor: Move creation of parameter mapping for objective<->simulation to classes (1020)

CI:
* Refactor: Cleanup and reorganize tests (1026)
* Fix: benchmark problem test should fail on missing files (Closes 1015)