Last modified by dionperd on 2024/04/08 12:55
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1 [[image:SimulateWithEBRAINS.jpg]]
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5 == **TVB-Multiscale: Deep Brain Stimulation use case demonstration** ==
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7 November 9th, 2022
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10 (% class="wikigeneratedid" id="HTVB-multiscaleJupyterHubappsarenowdeprecated21See:A0https:2F2Fwiki.ebrains.eu2Fbin2Fview2FCollabs2Fthe-virtual-brain-multiscale2FA0abouthowtorunTVB-multiscale28TVB-NEST2CTVB-NetPyNE28NEURON292CTVB-ANNarchy29onEBRAINS21" %)
11 (% 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!(%%)**
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13 === What can I find here? ===
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15 * [[Presentation slides>>attach:2022-11-09_TVB-multiscale_SimulateWIthEbrains.pdf]] from the workshop's lecture.
16 * 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.
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18 === Guide to run the use-case notebooks ===
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20 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!)
21 1. Navigate to "Contributed-Notebooks" folder, which offers user-specific persistent storage.
22 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
23 unzip SimulateWithEBRAINS.zip
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25 ! unzip SimulateWithEBRAINS.zip
26 in a notebook.
27 1. Run the TVB-corr-cortex-opt.ipynb notebook for TVB-ANNarchy cosimulation and the ANNarchy-spiking-cortex.ipynb one for ANNarchy only simulation.