Wiki source code of Simulate with EBRAINS TVB-multiscale workshop presentation
Last modified by dionperd on 2024/04/08 12:55
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3.1 | 1 | [[image:SimulateWithEBRAINS.jpg]] |
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2.1 | 2 | |
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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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17.1 | 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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2.1 | 12 | |
| 13 | === What can I find here? === | ||
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14.1 | 15 | * [[Presentation slides>>attach:2022-11-09_TVB-multiscale_SimulateWIthEbrains.pdf]] from the workshop's lecture. |
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5.1 | 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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2.1 | 17 | |
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15.1 | 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. | ||
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9.1 | 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 | ||
| 24 | on a terminal, or | ||
| 25 | ! unzip SimulateWithEBRAINS.zip | ||
| 26 | in a notebook. | ||
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2.1 | 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. |