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BlueBrain / MOOC-neurons-and-synapses-2017

Reference data for the "Simulation Neuroscience:Neurons and Synapses" Massive Online Open Course
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StochasticTsodyksMarkram_AMPA_NMDA.mod does not compile (in "Week 4. Graded assignment.ipynb") #65

Closed Anner-deJong closed 3 years ago

Anner-deJong commented 3 years ago

Output when running !nrnivmodl ./MOOC-neurons-and-synapses-2017/ModelingSynapses/mechanisms :

...
Translating StochasticTsodyksMarkram_AMPA_NMDA.mod into /content/x86_64/StochasticTsodyksMarkram_AMPA_NMDA.c
R not really a STATE; Ie. No differential equation for it.
 at line 281 in file StochasticTsodyksMarkram_AMPA_NMDA.mod
...

Tried several changes (see below) but my unfamiliarity with .mod files, as well as I cant compile locally but only in a colab, is not getting me anywhere. Hopefully someone more familiar has a fix.

Side notes:

It seems this file is an update from the non Stochastic file, but with some of the updates missing (e.g. the R, but also local A still declared but unused in NET_RECEIVE, R never assigned to, ..)

wvangeit commented 3 years ago

It looks like something changed in NEURON. Somebody else had reported this before: https://github.com/BlueBrain/MOOC-neurons-and-synapses-2017/issues/60

I've just pushed a fix to this repo: https://github.com/BlueBrain/MOOC-neurons-and-synapses-2017/pull/66/files

This fix will only be visible to people who create a new collab, so I propose for now you manually apply the fix above.

Thanks, let us know how it goes.

Anner-deJong commented 3 years ago

Compiles like a charm, thank you Werner van Geit!

(Sorry I didnt see the other report before)