Search found 5 matches

by jedlund
Wed Sep 30, 2015 7:38 pm
Forum: NEURON + Python
Topic: Patch to allow restore after recreating the geometry
Replies: 4
Views: 1890

Re: Patch to allow restore after recreating the geometry

I haven't solved the above problem with restoring synapses, but I did discover that you can install them after a restore by calling finitialize() after the restore. I developed 2 examples and emailed them to Robert. SimpleModelSaveToFile.py demonstrates one way of running a geometry to steady state,...
by jedlund
Tue Sep 29, 2015 7:21 pm
Forum: NEURON + Python
Topic: Patch to allow restore after recreating the geometry
Replies: 4
Views: 1890

Re: Patch to allow restore after recreating the geometry

After having problems with the above patch and ExpSyn, I went back to the standard neuron 7.4 and tried: 1. create a geometry 2. install a synapse (set to fire at 410 ms) 3. ran the simulation for 400ms 4. save the state to disk 5. finish the simulation (synapse fires fine) 6. Steps 1 and 2 again 7....
by jedlund
Mon Sep 28, 2015 9:10 pm
Forum: NEURON + Python
Topic: Patch to allow restore after recreating the geometry
Replies: 4
Views: 1890

Re: Patch to allow restore after recreating the geometry

This patch might not be as useful as I thought. Here's the basic outline of what I was attempting: 1. Create neuron geometry (without extracellular fields, iclamps, or synapses) 2. Run the simulation to a steady state 3. Save the state in memory 4. Destroy the neuron geometry 5. Create neuron geomet...
by jedlund
Wed Sep 23, 2015 4:10 pm
Forum: NEURON + Python
Topic: Patch to allow restore after recreating the geometry
Replies: 4
Views: 1890

Patch to allow restore after recreating the geometry

When running multiple simulations on the same geometry (with different extracellular fields and/or synapse weights, etc) it's useful to be able to run the simulation to steady state, save the state of the sections, and then use this saved state to start new simulations after recreating the exact sam...
by jedlund
Tue Jan 01, 2013 4:22 pm
Forum: Specific models
Topic: Help with McIntyre axon model
Replies: 3
Views: 13082

Re: Help with McIntyre axon model

I have a couple of questions about this model. After reading the FAQ I ran modlunit on the AXNODE.mod before compiling it. ~/Downloads/NEURON/MRGaxon$ modlunit AXNODE.mod model 1.1.1.1 1994/10/12 17:22:51 Checking units of AXNODE.mod units: 1 units: 1000 /sec The units of the previous two expression...