Release v0.5.0

[IshaanDesai]

This release of the Micro Manager consists of the following changes/additions:

• Use absolute values to calculate normalizing factor for relative norms in adaptivity Use absolute values to calculate normalizing factor for relative norms in adaptivity #125
• Add option to use only one micro simulation object in the snapshot computation Snapshot: Add possibility to have only one micro simulation object #123
• Explicitly check if time window has converged using the API function is_time_window_complete() Explicitly check if the time window has completed #118
• Add MicroManagerSnapshot enabling snapshot computation and storage of microdata in HDF5 format Snapshot computation #101
• Make sklearn an optional dependency
• Move the config variable micro_dt from the coupling parameters section to the simulation parameters section Move micro_dt from coupling parameters to simulation parameters in the configuration #114
• Set time step of micro simulation in the configuration, and use it in the coupling Set initial time window size of the micro simulation in the configuration #112
• Add a base class called MicroManager with minimal API and member function definitions, rename the existing MicroManager class to MicroManagerCoupling Add base class for Micro Manager and restructure main #111
• Handle calling initialize() function of micro simulations written in languages other than Python Handle the case where micro simulations written in C++ have the initialize() function #110
• Check if initial data returned from the micro simulation is the data that the adaptivity computation requires Check if initial data returned from the micro simulation is the data that the adaptivity computation requires #109
• Use executable micro-manager-precice by default, and stop using the script run_micro_manager.py A collection of restructuring and minor updates #105
• Make initialize() method of the MicroManager class public A collection of restructuring and minor updates #105
• Optionally use initial macro data to initialize micro simulations Optionally use initial macro data to initialize micro simulations #104
• Use pyproject.toml instead of setup.py to configure the build. Package name is now micro_manager_precice Add pyproject.toml #84
• Add handling of crashing micro simulations Handle crashing micro simulations #85
• Add switch to turn adaptivity on and off in configuration Add switch to turn adaptivity on and off in configuration #93