3 Mar
2020
3 Mar
'20
9:41 a.m.
Hi Benedikt!
How are you creating your SynapseCollections? If you call GetConnections() without any
arguments, you should receive all connections and then you can call set() on them once.
Then you wouldn't need to store the SynapseCollections in a list, all connections
would be represented by the SynapseCollection. You can also pass
individual/sliced/composite etc. NodeCollections to GetConnections to get specific
connections.
Your idea about a composite SynapseCollection is interesting. It is not possible at the
moment though. The problem I see is that we have to be careful about what happens if
Connect is called between two calls to GetConnections, because the first SynapseCollection
might then be invalid. Another problem can occur if you call GetConnections with sources
as arguments and store that SynapseCollection, then call GetConnections again without any
arguments and store that SynapseCollection. Your second SynapseCollection will then
contain the connections of the first SynapseCollection, and a composite SynapseCollection
will have too many connections. We cannot have unique connections in a SynapseCollection,
because calling Connect several times with the same NodeCollections is allowed.
We don't have any more pages covering the transition from NEST 2 to 3 than the two
unfortunately. But, we have tried to go through the documentation as much as possible, so
that the pages are updated to fit with NEST 3. You might find this page helpful
https://nest-simulator.readthedocs.io/en/latest/ref_material/pynest_apis.ht…, it
contains a list of functions for the PyNEST interface, with descriptions of the functions,
the arguments it take and what the function returns.
Best regards,
Stine
________________________________
Fra: Hans Ekkehard Plesser <hans.ekkehard.plesser(a)nmbu.no>
Sendt: 2. mars 2020 22:58
Til: NEST User Mailing List
Emne: [NEST Users] Re: nest3: How to create composite of SynapseCollections
Hello Benedikt!
I will leave it to the SynapseCollection experts to answer your questions about
SC-details.
But your question made me wonder if you are building your network from an explicitly
specified connectome, i.e., a table with one row per connection, specifying source,
target, weight and delay. In that case, our new feature to build connections directly from
NumPy arrays may be useful for you (and fast). It is still under review, but you can find
it at
https://github.com/nest/nest-simulator/pull/1429
Best regards,
Hans Ekkehard
On 2 Mar 2020, at 22:21, benedikt.s.vogler@tum.de<mailto:benedikt.s.vogler@tum.de>
wrote:
Hello everyone!
I am transitioning my Code from nest 2 to nest 3.
In nest 2 I used a list of connections and could use this list with
nest.Get/SetStatus().
With nest 3 I now have a list of SynapseCollections instances, where each synapse
collection contains only one connection. For node collections, there seems to be an
operator to create a composite
(https://nest-simulator.readthedocs.io/en/latest/guides/from_nest2_to_nest3.…).
For SynapseCollections, however, I was unable to use the plus operator and could not find
similar documentation as in the transition guide. My current workaround is to loop over
each instance the list and call Set() on each instance/synapse. What is the recommended
way to create a SynapseCollections from many?
Is there somewhere more documentation covering nest 3 than the two pages covering the
changes form nest 2 to 3?
Kind regards,
Benedikt S. Vogler
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