Open gtdang opened 4 months ago
ntolley
commented
4 months ago Is it an easy addition? The probability should default to 1.0 for all connections.
If it's straight forward to implement then I would say yes, it's a line of investigation that people haven't gone down because it wasn't possible in the old GUI
gtdang
commented
4 months ago Do all connections and all weights have an associated probability? Or is it conditional?
ntolley
commented
4 months ago Whenever you call net.add_connection to add a drive or connect cell types, there's a probability argument that let's you randomly select some subset of all possible cell-cell connections. In that sense any entry in the net.connectivity list could have probability < 1.0, but by default it's always set to 1.0.
Where we need to be careful is that net.connectivity[conn_idx]['gid_pairs'] will change depending on the value of probability and conn_seed. Since the GUI builds each connection separately from the widget I don't think this will be a problem, since net.add_connection is still being used when you hit the run button and compile the Network object
gtdang
commented
4 months ago
Working on the Network configuration export I noticed that the GUI is not using the connection probability in any way.
The connectivity only have a weight widget parameter.
The connectivity widget constructor is shown below. Notice the docstring mentions probability, but it is not in the box construct. It's a bit hard to read but the connectivity box is a vertical box (Vbox) composed of 3 elements:
The Problem A problem arises when initializing the new network from widget values. It tries to assign a probability from a widget that does not exist (see below). The
vbox_key.children[2].value, is not a probability widget but the html widget that styles the black horizontal bar. So the network actually gets assigned a probability value of"<hr style='margin-bottom:5px'/>"! https://github.com/jonescompneurolab/hnn-core/blob/a1c94ee2f83e3b7a432fb03daa659f25a05da98a/hnn_core/gui/gui.py#L1650-L1653Solution I suppose the easiest solution is to just add the probability as a widget for all the connections. Does this make sense for all types of connections?