Run the Micro Manager from the terminal with a configuration file as input argument or from a Python script.
Updated 14 May 24
The Micro Manager is run directly from the terminal by providing the path to the configuration file as an input argument in the following way
micro_manager micro-manager-config.json
Alternatively the Manager can also be run by creating a Python script which imports the Micro Manager package and calls its run function. For example a run script run-micro-manager.py would look like
from micro_manager import MicroManager
manager = MicroManager("micro-manager-config.json")
manager.solve()
The Micro Manager can also be run in parallel, using the same script as stated above
mpirun -n <number-of-procs> python3 run-micro-manager.py