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Version 4.1 by dionperd on 2021/06/02 16:12
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2 //McGill University "Summer School in Nonlinear Dynamics for the Life Sciences with Applications to Neuroscience and Psychology" (June 2021)//
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4 == What can I find here? ==
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6 * [[Homework materials>>url:https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/Homework]] including a use case of a TVB - Spiking Basal Ganglia multiscale cosimulation notebook (see also attached .zip file at Collab's front page)
7 * [[Homework solutions>>url:https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/HomeworkSolutions.zip]] and [[Homework solutions' outputs>>url:https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/HomeworkSolutionsOutputs.zip]] (see also attached .zip files at Collab's front page; password protected)
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9 === Guide to run the use-case notebook ===
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11 1. Run the TVB-NEST app by browsing to [[https:~~/~~/tvb-nest.apps.hbp.eu/>>url:https://tvb-nest.apps.hbp.eu/]] and logging in with your EBRAINS account.
12 1. Navigate to "ContributedNotebooks" folder, which offers persistent storage for EBRAINS users.
13 1. You will need the notebook [[BasalGangliaHomework.ipynb>>url:https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/Homework/BasalGangliaHomework.ipynb]], the data folder [[basal_ganglia_conn>>url:https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/Homework/basal_ganglia_conn]], and the pictures folder [[pics>>url:https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/Homework/pics]], found in the [[drive folder "Homework>>url:https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/Homework]]. All materials can also be found as a .zip file "Homework.zip" attached to Collab's front page (scroll down to find it).
14 1. The easiest way to get the above materials is to upload "Homework.zip" to "ContributedNotebooks" folder, and run the command
15 ! unzip ./Homework.zip
16 on a cell of a new notebook, from within the same folder.
17 1. Finally, navigate inside the decompressed Homework folder and run the notebook BasalGangliaHomework.ipynb. Your results will be saved in your personal drive space and can be found in the "ContributedNotebooks" folder whenever you log in again to the app.
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