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get/set status conductance based synapses
by Mikkel Elle Lepperød 04 Sep '19

04 Sep '19

Hi! Is it possible to get and set the status of a neuron with conductance based synapses (iaf_cond_alpha)? I only see V_m after getting the status of the nodes, but I need to get/set the synapse states as well (g_ex, g_in). Best -- Mikkel Elle Lepperød <http://cinpla.org/people/> Centre for Integrative Neuroplasticity (CINPLA <http://cinpla.org>) University of Oslo (UiO <http://uio.no>) Kristine Bonnevies hus, room 2513

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problem loading pynn nest installed from live media
by Julian Martin Leslie Budd 04 Sep '19

04 Sep '19

Hi After installing NEST ubuntu 18.04 live media (lubuntu-18.04_nest-2.18.0.ova downloaded a few days ago), I get the following error message but a m able to import nest in python3 ok: nest@nestvm:~$ python3 Python 3.6.8 (default, Jan 14 2019, 11:02:34) [GCC 8.0.1 20180414 (experimental) [trunk revision 259383]] on linux Type "help", "copyright", "credits" or "license" for more information. >>> import pyNN.nest as sim [INFO] [2019.8.21 14:31:47 /home/nest/work/nest-simulator-2.18.0/nestkernel/rng_manager.cpp:217 @ Network::create_rngs_] : Creating default RNGs [INFO] [2019.8.21 14:31:47 /home/nest/work/nest-simulator-2.18.0/nestkernel/rng_manager.cpp:260 @ Network::create_grng_] : Creating new default global RNG -- N E S T -- Copyright (C) 2004 The NEST Initiative Version: nest-2.18.0 Built: Jul 2 2019 15:09:55 This program is provided AS IS and comes with NO WARRANTY. See the file LICENSE for details. Problems or suggestions? Visit https://www.nest-simulator.org Type 'nest.help()' to find out more about NEST. Traceback (most recent call last): File "<stdin>", line 1, in <module> File "/usr/local/lib/python3.6/dist-packages/pyNN/nest/__init__.py", line 18, in <module> from . import simulator File "/usr/local/lib/python3.6/dist-packages/pyNN/nest/simulator.py", line 257, in <module> state = _State() # a Singleton, so only a single instance ever exists File "/usr/local/lib/python3.6/dist-packages/pyNN/nest/simulator.py", line 59, in __init__ self.verbosity = "warning" File "/usr/local/lib/python3.6/dist-packages/pyNN/nest/simulator.py", line 120, in _set_verbosity nest.sli_run("M_%s setverbosity" % verbosity.upper()) AttributeError: module 'nest' has no attribute 'sli_run' >>> Any suggestions? Thanks.

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installation issue: make installcheck fail pynest tests
by Julian Martin Leslie Budd 03 Sep '19

03 Sep '19

Hi Please could someone suggest the most likely reason why current NEST (v2.16.0) appears to install ok (tutorials tested work) but fails during make installcheck for pynest tests: $ make installcheck ... Phase 7: Running PyNEST tests. ------------------------------ Using nosetests. [cajal:07463] Failing at address: 0x44000099 [cajal:07463] *** End of error message *** Segmentation fault (core dumped) PyNEST tests: Passed: 0 Skipped: 0 Failed: 0 /home/julianb/Documents/NEST/share/nest/extras/do_tests.sh: 790: /home/julianb/Documents/NEST/share/nest/extras/do_tests.sh: arithmetic expression: expecting primary: " 363 + " CMakeFiles/installcheck.dir/build.make:57: recipe for target 'CMakeFiles/installcheck' failed make[3]: *** [CMakeFiles/installcheck] Error 2 CMakeFiles/Makefile2:99: recipe for target 'CMakeFiles/installcheck.dir/all' failed make[2]: *** [CMakeFiles/installcheck.dir/all] Error 2 CMakeFiles/Makefile2:106: recipe for target 'CMakeFiles/installcheck.dir/rule' failed make[1]: *** [CMakeFiles/installcheck.dir/rule] Error 2 Makefile:208: recipe for target 'installcheck' failed make: *** [installcheck] Error 2 $ Current setup: ubuntu 16.04, python 2.7.12, and nose 1.3.7. Thanks.

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weigth recorder does not record recorded eligibility trace and neuromodulator concentration.
by anduls＠web.de 02 Sep '19

02 Sep '19

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Open NEST Developer Video Conference Monday 2 September 2019 11.30 CEST (UTC+2)
by Dennis Terhorst 02 Sep '19

02 Sep '19

Dear NEST Developers! I would like to invite you to our next bi-weekly Open NEST Developer Video Conference today Monday 2 September, 11.30-12.30 CEST (UTC+2). See below for information about how to log into the meeting. The agenda for this meeting is also available online https://github.com/nest/nest-simulator/wiki/2019-09-02-Open-NEST-Developer-… • Welcome • Review of NEST User Mailing List • Review of open Github Pull Request • Review of open Github Issues See you soon! 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 _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org

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stdp_dopamine_synapse weight_recorder eligibility trace and neuromodulator concentration.
by anduls＠web.de 23 Aug '19

23 Aug '19

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cannot "import nest" in virtual box installation?
by r.doursat＠mmu.ac.uk 19 Aug '19

19 Aug '19

Hello, I followed the NEST LIVE MEDIA Installation instructions, and the NEST 2.18.0 VirtualBox lubuntu 18.04_1 seems to be running fine. But then in a terminal window in the home directory, and whether running from inside ipython or python, after I type "import nest" at the prompt, I get an error message: "ImportError: dynamic module does not define init function (initpynestkernel)" (line 74 of ll_api.py). There is also another error message just before it: "Import kernel in __init__ after initializing low-level APIs" (line 28 of __init__.py) How can this be fixed? Thanks! -Rene

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Save all weights, set new weights and update to the simulation.
by zhe.sun.vk＠riken.jp 19 Aug '19

19 Aug '19

Hi everyone, I am SUN, working in RIKEN, Japan. I am working on one issue. I am useing the GetConnections to get the weights and keep it in the text. connections = nest.GetConnections(source, target) When I want to update the weight with the new information. I am using this: conn=nest.GetConnections(gid,gid) nest.SetStatus(conn, newweight) But it is not working, do you have any ideas? Best wishes, Sun

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Open NEST Developer Video Conference Monday 19 August 2019 11.30 CEST (UTC+2)
by Hans Ekkehard Plesser 19 Aug '19

19 Aug '19

Dear NEST Developers! I would like to invite you to our next bi-weekly Open NEST Developer Video Conference tomorrow Monday 19 August, 11.30-12.30 CEST (UTC+2). See below for information about how to log into the meeting. The agenda for this meeting is also available online https://github.com/nest/nest-simulator/wiki/2019-08-19-Open-NEST-Developer-… • Welcome • Review of NEST User Mailing List • Review of open Github Pull Request • Review of open Github Issues See you soon! Hans Ekkehard Plesser ------------------ 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 -- Prof. Dr. Hans Ekkehard Plesser Head, Data Science Section 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 Home http://arken.nmbu.no/~plesser _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org

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NEST 2.18.0 (and 2.16.0) now available in NeuroFedora
by Ankur Sinha 13 Aug '19

13 Aug '19

Hello, On behalf of the NeuroFedora team, I'm happy to report that NEST 2.18.0 and 2.16.0 are both available for use on Fedora. Information on using NEST on NeuroFedora is documented here: https://docs.fedoraproject.org/en-US/neurofedora/nest/ Here are a few quick FAQs for your convenience: Q. How do I use NEST on NeuroFedora? A. It only takes two steps to install NEST using `dnf` (the default package manager): - Download and run (optionally install) a "live" Fedora Workstation image from https://getfedora.org - Install NEST 2.18.0: Run `sudo dnf install python3-nest` in a terminal. Q. How do I use version 2.16.0? A. 2.16.0 is provided as a "module". To install the 2.16.0 version: - Download and run (optionally install) a "live" Fedora Workstation image from https://getfedora.org - Install NEST 2.16.0: Run `sudo dnf module install nest:2.16.0` in a terminal. Please note that only one version of NEST can be installed at once. Q. Does NEST in NeuroFedora include MPI support? A. Yes---variants built with both MPICH and OpenMPI are available to use. Q. Does NEST in NeuroFedora include libneurosim/MUSIC/CSA support? A. Not all of them yet. - libneurosim: Yes - MUSIC: No (under review: https://pagure.io/neuro-sig/NeuroFedora/issue/28) - CSA: No (WIP: https://pagure.io/neuro-sig/NeuroFedora/issue/33) Q. Where do I get help? A. The NeuroFedora team maintains multiple communication channels for support and general discussion: https://docs.fedoraproject.org/en-US/neurofedora/communicating/ Q. What other tools does NeuroFedora provide? A. The complete list includes neuron, auryn, PyLEMS, NineML and lots more: https://src.fedoraproject.org/group/neuro-sig Fedora also includes more software that is not specific to computational neuroscience---such as productivity and development tools, a variety of desktop environments, server and container focussed editions, and other science related software: - https://getfedora.org/ - https://labs.fedoraproject.org/ - https://spins.fedoraproject.org/ Q. How can I help? A. The NeuroFedora team is made up of volunteers that believe in Free Software and Open Science. Information on how you can join us and help is summarised here: https://docs.fedoraproject.org/en-US/neurofedora/contributing/ -- Thanks, Regards, Ankur Sinha (He / Him / His) | https://ankursinha.in PhD candidate in computational neuroscience at UH Biocomputation | http://biocomputation.herts.ac.uk/ Free/Open source community volunteer at the Fedora project | https://fedoraproject.org/wiki/User:Ankursinha Time zone: Europe/London

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