synaptic delay values different

[wagdy88]

Hello,

I am working on extracting values for the synaptic delay for one of my codes. I noticed that the values have been inconsistent for the distal delay between net.connectivity and net._params

In net._params, the distal delay is as follows:
"input_dist_A_delay_L2": 5.0,
"input_dist_A_delay_L5": 5.0,

However, in net.connectivity, the distal delay is as follows:
evdist1 -> L5_basket
cell counts: 35 srcs, 35 targets
connection probability: 1.0
loc: 'distal'; receptor: 'ampa'
weight: 0.0; delay: 0.1; lamtha: 3.0
,
evdist1 -> L5_pyramidal
cell counts: 100 srcs, 100 targets
connection probability: 1.0
loc: 'distal'; receptor: 'ampa'
weight: 0.25807; delay: 0.1; lamtha: 3.0
,
evdist1 -> L5_pyramidal
cell counts: 100 srcs, 100 targets
connection probability: 1.0
loc: 'distal'; receptor: 'nmda'
weight: 0.156725; delay: 0.1; lamtha: 3.0

Which one is the correct one?

Also, how can I extract data from net.connectivity if it's the correct one?

Thanks

[rythorpe]

net.connectivity should be the correct one. net._params is a private attribute that is used internally, so I would discourage anyone from trying to interpret any values specified in this dictionary.

[jasmainak]

net.connectivity is a dictionary, so you just need to use the keys. E.g., net.connectivity['evdist1']['loc']

[wagdy88]

Hi @jasmainak,
I tried this and it returns a list not a dictionary. Here's what I get when I check the type:
type(net.connectivity)
Out[3]: list

Is there a way to get the values directly from it?
Thanks
Mohamed

[rythorpe]

Oh yes, net.connectivity is a list of dict. I recommend taking a look at our connectivity tutorial as it will explain how to set and view network connectivity.

[wagdy88]

Thank you!

[jasmainak]

@wagdy88 for usage questions, let us try to use the discussions page instead of the bug tracker: https://github.com/jonescompneurolab/hnn-core/discussions. I'm going to convert this issue into a discussion for now.