Connecting components

Connecting sections

To other sections

Connecting sections together is the basic way of constructing cells in NEURON. You can do so using the Section.connect() method.

from patch import p
s = p.Section()
s2 = p.Section()
s.connect(s2)

from neuron import h
s = h.Section()
s2 = h.Section()
s.connect(s2)

Network connections

TO DO

In parallel simulations

In Patch most of the parallel context is managed for you, and you can use the ParallelCon() method to either connect an output (cell soma, axons, …) to a GID or a GID to an input (synapse on postsynaptic cell, …).

The following code transmits the spikes of a Section on GID 1:

from patch import p
gid = 1
s = p.Section()
nc = p.ParallelCon(s, gid)

from neuron import h
gid = 1
h.nrnmpi_init()
pc = h.ParallelContext()
s = h.Section()
nc = h.NetCon(s(0.5)._ref_v, None)
pc.set_gid2node(gid, pc.id())
pc.cell(gid, nc)
pc.outputcell(gid)

You can then receive the spikes of GID 1 on a synapse:

from patch import p
gid = 1
syn = p.Section().synapse(p.SynExp)
nc = p.ParallelCon(gid, syn)

from neuron import h
gid = 1
h.nrnmpi_init()
pc = h.ParallelContext()
s = h.Section()
syn = h.SynExp(s)
pc.gid_connect(gid, syn)