Last modified by dionperd on 2024/04/08 12:55
From version 1.1
edited by dionperd
on 2022/11/08 15:53
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To version 16.1
edited by dionperd
on 2024/04/08 12:52
Change comment: There is no comment for this version

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1 +[[image:SimulateWithEBRAINS.jpg]]
2 +
3 +
4 +
5 +== **TVB-Multiscale: Deep Brain Stimulation use case demonstration** ==
6 +
7 +November 9th, 2022
8 +
9 +
10 +== (% style="color:#e74c3c" %)**TVB-multiscale JupyterHub apps are now deprecated! See:**(%%) **[[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain-multiscale/>>url:https://wiki.ebrains.eu/bin/view/Collabs/the-virtual-brain-multiscale/]] (% style="color:#e74c3c" %)about how to run TVB-multiscale (TVB-NEST, TVB-NetPyNE (NEURON), TVB-ANNarchy) on EBRAINS!(%%)** ==
11 +
12 +=== What can I find here? ===
13 +
14 +* [[Presentation slides>>attach:2022-11-09_TVB-multiscale_SimulateWIthEbrains.pdf]] from the workshop's lecture.
15 +* The notebook ([[SimulateWithEBRAINS.zip>>path:https://wiki.ebrains.eu/bin/download/Collabs/tvb-multiscale-cosim-mcgillsummerschool/Simulate%20with%20EBRAINS%20TVB-multiscale%20workshop%20presentation/WebHome/SimulateWithEBRAINS.zip?rev=1.1]]) demonstrated during the workshop.
16 +
17 +=== Guide to run the use-case notebooks ===
18 +
19 +1. Run the EBRAINS TVB-Multiscale app by browsing to [[https:~~/~~/tvb-multiscale.apps.hbp.eu/>>url:https://tvb-multiscale.apps.hbp.eu/]] and logging in with your EBRAINS account. (The first time you log-in, you might need to try several times by refreshing the page, until it works for you!)
20 +1. Navigate to "Contributed-Notebooks" folder, which offers user-specific persistent storage.
21 +1. Upload and unzip there [[SimulateWithEBRAINS.zip>>path:https://wiki.ebrains.eu/bin/download/Collabs/tvb-multiscale-cosim-mcgillsummerschool/Simulate%20with%20EBRAINS%20TVB-multiscale%20workshop%20presentation/WebHome/SimulateWithEBRAINS.zip?rev=1.1]] by running
22 +unzip SimulateWithEBRAINS.zip
23 +on a terminal, or
24 +! unzip SimulateWithEBRAINS.zip
25 +in a notebook.
26 +1. Run the TVB-corr-cortex-opt.ipynb notebook for TVB-ANNarchy cosimulation and the ANNarchy-spiking-cortex.ipynb one for ANNarchy only simulation.
2022-11-09_TVB-multiscale_SimulateWIthEbrains.pdf
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SimulateWithEBRAINS.zip
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