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Open NEST Developer Video Conference Monday July 17 2023 11:30 CEST (UTC+2)
by Dennis Terhorst 17 Jul '23

17 Jul '23

Dear NEST Users & Developers! I would like to invite you to our next fortnightly Open NEST Developer Video Conference, today Monday July 17, 11.30-12.30 CEST (UTC+2). Also as usual, in the Project team round, a contact person of each team will give a short statement summarizing ongoing work in the team and cross-cutting points that need discussion among the teams. The remainder of the meeting we would go into a more in-depth discussion of topics that came up on the mailing list or that are suggested by the teams. Feel free to join the meeting also if it's just to bring your own quick questions for direct discussion in the in-depth section. Agenda * Welcome * Review of NEST User Mailing List * Project team round * In-depth discussion The agenda for this meeting is also available online, see https://github.com/nest/nest-simulator/wiki/2023-07-17-Open-NEST-Developer-… Looking forward to seeing you! Cheers, Dennis Terhorst ------------------ Log-in information ------------------ We use a virtual conference room provided by DFN (Deutsches Forschungsnetz). You can use the web client to connect. We however encourage everyone to use a headset for better audio quality or even a proper video conferencing system (see below) or software when available. Web client * Visit https://conf.dfn.de/webapp/conference/97938800 * Enter your name and allow your browser to use camera and microphone * The conference does not need a PIN to join, just click join and you're in. In case you see a dfnconf logo and the phrase "Auf den Meetingveranstalter warten", just be patient, the meeting host needs to join first (a voice will tell you). VC system/software How to log in with a video conferencing system, depends on you VC system or software. - Using the H.323 protocol (eg Polycom): vc.dfn.net##97938800 or 194.95.240.2##97938800 - Using the SIP protocol:97938800@vc.dfn.de - By telephone: +49-30-200-97938800 For those who do not have a video conference system or suitable software, Polycom provides a pretty good free app for iOS and Android, so you can join from your tablet (Polycom RealPresence Mobile, available from AppStore/PlayStore). Note that firewalls may interfere with videoconferencing in various and sometimes confusing ways. For more technical information on logging in from various VC systems, please see http://vcc.zih.tu-dresden.de/index.php?linkid=1.1.3.4

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Casting in NESTML
by chiara de luca 06 Jul '23

06 Jul '23

Hello everyone, just a small question about NESML. I would like to cast a variable from float to integer in the onReceive block of a custom synapse model. Is there an easy way to do that? Can't find anything in documentation about that. Thank you! Chiara

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Open NEST Developer Video Conference Monday July 3 2023 11:30 CEST (UTC+2)
by Dennis Terhorst 03 Jul '23

03 Jul '23

Dear NEST Users & Developers! I would like to invite you to our next fortnightly Open NEST Developer Video Conference, today Monday July 3, 11.30-12.30 CEST (UTC+2). Also as usual, in the Project team round, a contact person of each team will give a short statement summarizing ongoing work in the team and cross-cutting points that need discussion among the teams. The remainder of the meeting we would go into a more in-depth discussion of topics that came up on the mailing list or that are suggested by the teams. Special topic today will be a discussion on dependency management. Feel free to join the meeting also if it's just to bring your own quick questions for direct discussion in the in-depth section. Agenda * Welcome * Review of NEST User Mailing List * Project team round * In-depth discussion The agenda for this meeting is also available online, see https://github.com/nest/nest-simulator/wiki/2023-07-03-Open-NEST-Developer-… Looking forward to seeing you! Cheers, Dennis Terhorst ------------------ Log-in information ------------------ We use a virtual conference room provided by DFN (Deutsches Forschungsnetz). You can use the web client to connect. We however encourage everyone to use a headset for better audio quality or even a proper video conferencing system (see below) or software when available. Web client * Visit https://conf.dfn.de/webapp/conference/97938800 * Enter your name and allow your browser to use camera and microphone * The conference does not need a PIN to join, just click join and you're in. In case you see a dfnconf logo and the phrase "Auf den Meetingveranstalter warten", just be patient, the meeting host needs to join first (a voice will tell you). VC system/software How to log in with a video conferencing system, depends on you VC system or software. - Using the H.323 protocol (eg Polycom): vc.dfn.net##97938800 or 194.95.240.2##97938800 - Using the SIP protocol:97938800@vc.dfn.de - By telephone: +49-30-200-97938800 For those who do not have a video conference system or suitable software, Polycom provides a pretty good free app for iOS and Android, so you can join from your tablet (Polycom RealPresence Mobile, available from AppStore/PlayStore). Note that firewalls may interfere with videoconferencing in various and sometimes confusing ways. For more technical information on logging in from various VC systems, please see http://vcc.zih.tu-dresden.de/index.php?linkid=1.1.3.4

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Re: Connection by dendrite
by Jona Scholz 02 Jul '23

02 Jul '23

Hello Anno and Willem, thank you for your replies. Anno's description of the problem is exactly what I was trying to express. It's too bad that generating connectivity like this can not be achieved as easily as I had hoped. Either way, that answers my question. The reference to the blue brain project is very interesting. Their work seems to be relevant to several of my problems. Thank you both :) Kind regards, Jona

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Repeated simulations of the same specified connectivity
by Daniel Esposito 30 Jun '23

30 Jun '23

I want to initialize a network with some random connectivity, following some standard connectivity rules, like is achieved by standard use of the nest.Connect function.Then I want to make several runs of this network, with the same connectivity. I learned however that this is not a straightforward thing to do repeated runs of the same network in NEST. Although I saw different solutions online, it is not clear that there is a 'standard' solution for how to achieve this goal of just initializing the network with the same connectivity several times, which seems fairly simple. This link <https://nest-simulator.readthedocs.io/en/stable/auto_examples/store_restore…> here, for example, shows how to store and restore a network, but it seems like overshoot for my purpose (the described problem is a network with plasticity). I also thought of creating a network, extract the connectivity, and then impose this connectivity in new networks, following what is explained here <https://nest-simulator.readthedocs.io/en/v3.4/synapses/connection_managemen…> in the 'Connecting sparse matrices with array indexing' section, but it's a bit tedious to implement (I started implementing it) and error prone. The alternative I'm thinking of now is to just re create the network on each pass of my loop with standard NEST functions, but giving the same random seed to NEST before making the connectivity each time. After the connectivity is done, I'd pass a new random seed, sampled from numpy's random number generator, and so each simulation would be a different repeat. I was wondering whether this very simple approach I propose would work, or whether I'm missing something. Thanks

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Re: Connection by dendrite
by Jona Scholz 30 Jun '23

30 Jun '23

Hello Anno, thank you for your reply. Not sure what using compartments entails, but I'm guessing I only need distance dependent connection probabilities. The probability should be 1 if a dendrite is close enough to a given neuron and 0 otherwise. Another point that may be relevant: it should be possible to have multiple connections between a pair of neurons. Each connection should be able to learn with a variation of STDP. Is this supported by default? Kind regards, Jona

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EBRAINS — Survey on use of tools and services
by Hans Ekkehard Plesser 30 Jun '23

30 Jun '23

Dear NEST Users, As you may know, the Human Brain Project is coming to an end in September and we are currently working hard on planning the future of the EBRAINS Research Infrastructure. In this context, EBRAINS has started a survey to determine the interest in tools and services provided by EBRAINS. The results of this survey will inform decisions on priorities for funding applications. We hope you could contribute to this survey by filling it in at https://wiki.ebrains.eu/bin/view/Collabs/slu-hbpb/25.06/ and would in particular hope that you would tick the boxes for NEST and related tools such as NESTML, NEST Desktop, Elephant (listed as Electrophysiology Analysis Toolkit) and LFPy. For the question "Relationship status on HBP and EBRAINS", if you are not working in an HBP-affiliated lab, "Stakeholder" is probably the most suitable answer, as there is no explicit category for "Tool User" or "Tool Contributor". Information on all tools listed in the survey is available under https://wiki.ebrains.eu/bin/view/Collabs/slu-hbpb/Tools%20description/ or the "Tools description" link on the left edge of the survey page. Best regards, Hans Ekkehard -- Prof. Dr. Hans Ekkehard Plesser Head, Department of Data Science Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway Phone +47 6723 1560 Email hans.ekkehard.plesser(a)nmbu.no<mailto:hans.ekkehard.plesser@nmbu.no> Home http://arken.nmbu.no/~plesser

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Connection by dendrite
by jona.m.scholz＠gmail.com 29 Jun '23

29 Jun '23

Hello everyone, first off some disclaimers (feel free to skip). I'm new to the space and don't know what I'm talking about. I'm also sorry if this is question is redundant, but I couldn't find an answer to it. Imagine a spatial network where neurons have free positions. Each neuron has associated dendrites, which are also just points in space. 2 neurons are connected if and only if the dendrite of 1 neuron is very close to the other neuron. I've created an image to show what I mean, but couldn't upload it here. It's under this link: https://ibb.co/nfh9hbn Is there a good way to achieve this? If there is not, what would be the best way to implement it? The pointers I'm looking for are along the lines of "yes use function x" or "no, you have to implement it in python" or maybe even "you can add this connectivity to our C++ back-end if you do this and that". Kind regards, Jona

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Open NEST Developer Video Conference Monday June 19 2023 11:30 CEST (UTC+2)
by Dennis Terhorst 19 Jun '23

19 Jun '23

Dear NEST Users & Developers! I would like to invite you to our next fortnightly Open NEST Developer Video Conference, today Monday June 19, 11.30-12.30 CEST (UTC+2). Also as usual, in the Project team round, a contact person of each team will give a short statement summarizing ongoing work in the team and cross-cutting points that need discussion among the teams. The remainder of the meeting we would go into a more in-depth discussion of topics that came up on the mailing list or that are suggested by the teams. Feel free to join the meeting also if it's just to bring your own quick questions for direct discussion in the in-depth section. Agenda * Welcome * Review of NEST User Mailing List * Project team round * In-depth discussion The agenda for this meeting is also available online, see https://github.com/nest/nest-simulator/wiki/2023-06-19-Open-NEST-Developer-… Looking forward to seeing you! Cheers, Dennis Terhorst ------------------ Log-in information ------------------ We use a virtual conference room provided by DFN (Deutsches Forschungsnetz). You can use the web client to connect. We however encourage everyone to use a headset for better audio quality or even a proper video conferencing system (see below) or software when available. Web client * Visit https://conf.dfn.de/webapp/conference/97938800 * Enter your name and allow your browser to use camera and microphone * The conference does not need a PIN to join, just click join and you're in. In case you see a dfnconf logo and the phrase "Auf den Meetingveranstalter warten", just be patient, the meeting host needs to join first (a voice will tell you). VC system/software How to log in with a video conferencing system, depends on you VC system or software. - Using the H.323 protocol (eg Polycom): vc.dfn.net##97938800 or 194.95.240.2##97938800 - Using the SIP protocol:97938800@vc.dfn.de - By telephone: +49-30-200-97938800 For those who do not have a video conference system or suitable software, Polycom provides a pretty good free app for iOS and Android, so you can join from your tablet (Polycom RealPresence Mobile, available from AppStore/PlayStore). Note that firewalls may interfere with videoconferencing in various and sometimes confusing ways. For more technical information on logging in from various VC systems, please see http://vcc.zih.tu-dresden.de/index.php?linkid=1.1.3.4

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correlated gaussian noise
by saeed taghavi 14 Jun '23

14 Jun '23

is there a way to generate correlated Gaussian white noise in the NEST? It is stated that the "noise_generator" can be used to inject a "Gaussian white” noise current into a node, also it is stated that all targets of a noise generator receive different currents. I am looking for a way to produce correlated white noise, or equally send the same noise to all targets of the "noise_generator". In the next step, I like to have a small duration of noisy current, then inject the same current into different neurons at different times. Best, Saeed

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