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Last modified by dionperd on 2024/04/08 12:54
From version 8.1
edited by dionperd
on 2021/06/02 16:23
Change comment: There is no comment for this version
To version 7.2
edited by dionperd
on 2021/06/02 16:18
Change comment: Update document after refactoring.

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1 -5th TVB in EBRAINS TVB-multiscale cosimulation hands-on session
1 +4th TVB in EBRAINS TVB-multiscale cosimulation hands-on session
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1 1  (% class="wikigeneratedid" %)
2 -What can I find here?
2 +//McGill University "Summer School in Nonlinear Dynamics for the Life Sciences with Applications to Neuroscience and Psychology" (June 2021)//
3 3  
4 -* A Jupyter notebook [[BasalHomework.ipynb>>https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/MacGillSummerSchool/Homework/BasalGangliaHomework.ipynb]] used for the hands-on session
5 -* A Jupyter notebook [[BasalHomeworkSolved.ipynb>>https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/MacGillSummerSchool/Homework/BasalGangliaHomework.ipynb||style="background-color: rgb(255, 255, 255);"]] with all the solutions to the session, which will be posted right after the session is over.
4 +== What can I find here? ==
6 6  
6 +* [[Homework materials>>https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/MacGillSummerSchool/Homework]] including a use case of a TVB - Spiking Basal Ganglia multiscale cosimulation notebook (see also attached .zip file at the current page)
7 +* [[Homework solutions>>https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/MacGillSummerSchool/HomeworkSolutions.zip]] and [[Homework solutions' outputs>>https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/MacGillSummerSchool/HomeworkSolutionsOutputs.zip]] (see also attached .zip files at the current page; password protected)
8 +
7 7  === Guide to run the use-case notebook ===
8 8  
9 9  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.
10 10  1. Navigate to "ContributedNotebooks" folder, which offers persistent storage for EBRAINS users.
11 -1. You will need the notebook [[BasalHomework.ipynb>>https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/MacGillSummerSchool/Homework/BasalGangliaHomework.ipynb]], the data folder [[basal_ganglia_conn>>https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/5thTVBinEBRAINSworkshop/basal_ganglia_conn]], and the pictures folder [[pics>>https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/5thTVBinEBRAINSworkshop/pics]], found in the [[drive folder "Homework/5thTVBinEBRAINSworkshop>>https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/5thTVBinEBRAINSworkshop]]5thTVBinEBRAINSworkshop. All materials can also be found as a .zip file "Homework.zip" attached to the current page (scroll down to find it).
13 +1. You will need the notebook [[BasalGangliaHomework.ipynb>>https://drive.ebrains.eu/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/file/MacGillSummerSchool/Homework/BasalGangliaHomework.ipynb]], the data folder [[basal_ganglia_conn>>https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/MacGillSummerSchool/Homework/basal_ganglia_conn]], and the pictures folder [[pics>>https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/MacGillSummerSchool/Homework/pics]], found in the [[drive folder "Homework/McGillSummerSchool>>https://drive.ebrains.eu/#my-libs/lib/14db5dbf-97c8-4971-86e5-9b15fd57dd87/MacGillSummerSchool/Homework]]. All materials can also be found as a .zip file "Homework.zip" attached to the current page (scroll down to find it).
12 12  1. The easiest way to get the above materials is to upload "Homework.zip" to "ContributedNotebooks" folder, and run the command
13 13  ! unzip ./Homework.zip
14 14  on a cell of a new notebook, from within the same folder.