zapit-Python-Bridge 0.1.2

Bridge for controlling Zapit from Python

zapit-Python-Bridge

This code is still under development. It is in no way ready for use. This bridge uses matlab.engine to communicate with MATLAB.

Example

Until it's on PiPy you should first cd to code dir and

pip install -e .

Then in iPython:

import zapit_python_bridge.bridge as zpb
from importlib import reload

# Create an instance of the bridge object
hZP = zpb.bridge()

# Interact
hZP.send_samples()
hZP.stop_opto_stim


hZP.send_samples(conditionNum=2,laserOn=0)
hZP.stop_opto_stim()

If you need to reload the module for development purposes, you must first delete the running class instance or it will hang when it next tries to connect:

In [1]: hZP.release_matlab()
Disconnecting from MATLAB

In [2]: reload(zpb)
Out[2]: <module 'zapit_python_bridge.bridge' from 'D:zapit-python-bridge\\zapit_python_bridge\\bridge.py'>

In [3]: hZP = zpb.bridge()
Attempting MATLAB connection...
Connected!

Minimal example for running an exeperiment

See examples directory

python minimal_experiment_example.py

Connecting to the zapit session: minimal example

In MATLAB:

 >> matlab.engine.shareEngine('zapit')

In iPython:

import matlab.engine
eng = matlab.engine.connect_matlab('zapit')

Make sure you have set up and calibrated everything in Zapit. Now in Python you can do:

hZP = eng.workspace['hZP']
hZPview = eng.workspace['hZPview']
eng.eval('hZP.stimConfig.plotChanSamples(2)',nargout=0)

# OR
SC = eng.subsref(hZP, {'type':'.','subs':'stimConfig'})
eng.plotChanSamples(SC, 1, nargout=0)


eng.sendSamples(hZP,  nargout=0)
eng.stopOptoStim(hZP,  nargout=0)