risecourse / kuznetsova2010

Kuznetsova2010

A python version of the hoc code from Kuznetsova et al, 2010. This version is hybrid - loads in the cell morphology from dopamine.hoc. Many other commands are issued in hoc using h(). Some are directly in python, as is plotting.

Running the model

Make sure to compile the mechanisms first:

In the directory of the model code, compile the *.mod mechanisms by running the following command in a terminal:

On Windows, run mknrndll On Mac and Linux, run nrnivmodl

Alternatively, open the NEURON Application folder (or program folder from the Start menu on Windows) and launch the mknrndll tool. When the gui appears, select the folder containing the code for Kuznetsova et al 2010. Then click the button to make nrnmech.dll.

After the mechanisms are successfully compiled, run main.py to receive a prompt asking which figure you would like to view. Answer the prompt with an input such as 2a2 or 6. You will need to wait several minutes for the simulation to run and then generate the figure.

You can continue to plot as many figures as you want before answering the prompt with q or quit.

The control trace (Figure 2a2) is slightly different than the screen shot provided in the original model repository. However, so is the hoc version when I run it; perhaps the authors made a change to their model after preparing the publication figures and before uploading to ModelDB.