Amici

General:
* AMICI now comes with a logo
* implement getName function for models
* Updated documentation / examples

Python:
* Enable MSVC compilation of Python extensions (847)
* Always recompile clibs and extensions (Closes 700)
* Extended PEtab support (Running
* enable multithreading in swig (938)
* Fixes pysb (902) (907)

C++
* Build optimized AMICI and sundials by default (Closes 934)

Matlab:
* Fix(matlab) Compile CalcMD5 on demand (Fixes 914)
* Don't pass empty include strings to mex
* Fix Matlab compilation error if AMICI or model path contains blanks

CI:
* Running additional test models

... and various minor fixes/updates

- **added python 3.8 support, dropped python 3.6 support** (898)
- Added logging functionality (900)
- Fixes PySB import (879, 902)
- Fixes symbolic processing (899)
- Improved build scripts (894,
- Improved petab support (886, 888, 891)
- CI related fixes (865, 896)

* **Sparsify dwdp to reduce computation time for adjoints (858)**
* Fix(matlab) update example name example_dae_events->example_calvetti (Closes 866)
* Fix nullptr deferencing for simulations with events when no measurements are provided (Fixes 866)
* Fix accessing empty vector during adjoint state event update (Closes 866)
* Fix pysb_import (fixes 878)

Bugfix release due to incorrect sensitivities w.r.t. sigmas introduced in 0.10.14.

No other changes.

**NOTE: For Python-imported SBML-models this release may compute incorrect sensitivities w.r.t. sigma. Bug introduced in 0.10.14, fixed in 0.10.15.**

Python:

* Don't require use of ModelPtr.get to call ExpData(Model)
* Fix import in generated model Python package
* Setup AMICI standalone scripts as setuptools entrypoints
* Simplify symbolic sensitivity expressions during Python SBML import
Fixes Infs in the Jacobian when using Hill-functions with states of 0.0.
* Extended Newton solver 848
The changes that allow performing Newton tests from the paper:
G. T. Lines, Ł. Paszkowski, L. Schmiester, D. Weindl, P. Stapor, and J. Hasenauer. Efficient computation of steady states in large-scale ODE models of biochemical reaction networks. accepted for Proceedings of the 8th IFAC Conference on Foundations of Systems Biology in Engineering (FOSBE), Valencia, Spain, October 2019.
* Use SWIG>=4.0 on travis to include PyDoc in sdist / pypi package (841)
* **Fix choice of likelihood formula; failed if observable names were not equal to observable IDs**
* Fix(sbml-import) Compartment IDs in right-hand side of Rules are not replaced and lead to undefined identifiers in c++ files
* Fix invalid logging level
* Speed up sympy simplification (871)

C++:

* Performance: Avoid unnecessary repeated function calls for SUNMatrixWrapper dimensions
* Add AmiciApplication class as context for handling so far global settings.
This allows for example setting custom logging functions for concurrent AMICI
runs, e.g. in multi-thread applications (Closes 576).

Misc:

* Setup performance test on github actions (853)
* Update documentation and FAQ for CBLAS requirement and others
* Update reference list

* BREAKING CHANGE: Renaming {get|set}tNewtonPreequilibration to {get|set}Preequilibration (Closes 720)
* Make wurlitzer non-optional requirement for AMICI python package (Fixes missing AMICI errors when running from jupyter notebooks)
* Compute initial state for Model::getInitialStates if not already set (Fixes 818)
* Make swig generate pydoc comments from doxygen comments 830 (Closes 745) to provide Python docstrings for C++ wrapper functions
* feature(cmake) Add option to disable compiler optimizations for wrapfunctions.cpp (Fixes 828) (829)
* Change SBML test suite to pytest to allow for parallel test execution… (824)
* Fix(cmake): -E option is not available in all sed versions. Neither is the equivalent -r. Use --regexp-extended instead (Closes 826)
* Refactor(python) Move PEtab import code from command line script… (825)
* Fix(core) Fix regular expressions for intel compiler (Closes 754) (822)
* Update workflow figure to include PySB (Closes 799)
* Fix compiler warnings