Get the Micro Manager

Get the latest Micro Manager release

Option 1: Install using pip

The Micro Manager package on PyPI is micro-manager-precice . To install, run

pip install micro-manager-precice

To enable crash handling by interpolation , the optional dependency sklearn is required. To install with sklearn, run

pip install micro-manager-precice[sklearn]

To use the Micro Manager for snapshot computation , the optional dependency h5py is required. To install with h5py, run

pip install micro-manager-precice[snapshot]

Option 2: Install manually

Required dependencies

Ensure that the following dependencies are installed:

• Python 3
• pyprecice: Python language bindings for preCICE
• numpy
• mpi4py
• psutil

Optional dependencies

• sklearn
• h5py (required for snapshot computations)

Clone the Micro Manager

git clone https://github.com/precice/micro-manager.git

Install manually

To install using pip, go to the directory micro-manager/ and run

pip install .

Adding optional dependencies works as above by adding them after the dot, e.g. .[sklearn].

Get the latest development version

If you want to use the latest development version of the Micro Manager, clone the develop branch and then build manually using pip .

Next step

After successfully installing the Micro Manager, proceed to preparing your micro simulation for the coupling .