- NEST Users - NEST Initiative Mail

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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problem with cmake directory
by atiye nejadebrahim 12 Jun '23

12 Jun '23

Hi all, I am running a nestml code and I have updated cmake,But I always receive this error ¨no such file or directory cmake¨. all .cpp and .h files are built and just the last .so file is remained. Can you help me how I can remove this error? Best,Atiyeh

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GetConnections in distributed simulation
by Petia Koprinkova 06 Jun '23

06 Jun '23

Dear NEST Support team, We are trying to get the weights of stdp synapses during a distributed simulation. According to NEST documentation and our experience function GetConnections returns only local connections but not all connections in our model. Could you please advise us how to get all connections in such a case? Best regards, Petia Koprinkova-Hristova

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Adding gap junctions using NESTML
by bstrohmer＠gmail.com 06 Jun '23

06 Jun '23

Hi everyone, has anyone successfully added a gap junction to an existing model using NESTML? I would like to add gap junction support to the aeif_cond_alpha neuron model but it is unclear how this can be done within NESTML. As suggested by Charl, I started to look into updating the jinja templates but I am not sure this will be possible since both the input/output of the neuron and the model's equation must be updated to support gap junctions. If anyone has any suggestions or if anyone has NESTML code for adding a gap junction to an existing model, I would be very appreciative. Thanks!

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Open NEST Developer Video Conference Monday June 5 2023 11:30 CEST (UTC+2)
by Dennis Terhorst 05 Jun '23

05 Jun '23

Dear NEST Users & Developers! I would like to invite you to our next fortnightly Open NEST Developer Video Conference, today Monday June 5, 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/2023-06-05-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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NEST Conference 2023 - registration deadline: 5 June 2023
by Hans Ekkehard Plesser 02 Jun '23

02 Jun '23

Dear all, This year's NEST Conference will again take place as a virtual conference on Thursday/Friday 15/16 June 2023. You can still register until Monday next week, June 5. More information on the program and how to register can be found on the conference website: https://nest-simulator.org/conference We are looking forward to seeing you all in June! Hans Ekkehard Plesser and the conference organizing committee -- 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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Handle input/output relation of device to node connection
by Robin Gilbert De Schepper 22 May '23

22 May '23

Hello NEST users, I'm trying to connect some devices in a black box manner and run into this error: ``` nest.lib.hl_api_exceptions.NESTErrors.IllegalConnection: IllegalConnection in SLI function Connect_g_g_D_D: Creation of connection is not possible because: Source node does not send output. Note that recorders must be connected as Connect(neuron, recorder). ``` Is there a way for me to inspect whether I should nest.Connect(A, B) or nest.Connect(B, A), or should I catch this error and try the inverse? Is this the only `IllegalConnection` error that can be thrown, or should I parse the error message? (which is prone to changes) -- Robin De Schepper, MSc (they/them) Department of Brain and Behavioral Sciences Unit of Neurophysiology University of Pavia, Italy Via Forlanini 6, 27100 Pavia - Italy Tel: (+39) 038298-7607 http://www-5.unipv.it/dangelo/

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