AMICI v0.11.1

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)