Last modified by spreizer on 2025/08/26 09:19
From version 37.2
edited by spreizer
on 2025/08/23 20:01
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To version 41.1
edited by spreizer
on 2025/08/23 20:16
Change comment: There is no comment for this version

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12 12  (((
13 13  (% class="col-xs-12 col-sm-8" %)
14 14  (((
15 -== From single-cell modeling to large-scale network dynamics with NEST Simulator ==
15 +(% class="wikigeneratedid" id="HFromsingle-cellmodelingtolarge-scalenetworkdynamicswithNESTSimulator" %)
16 +**From single-cell modeling to large-scale network dynamics with NEST Simulator**
16 16  
17 17  
18 18  **Instructor**: Sebastian Spreizer, PhD, University of Trier and Research Center Jülich
... ... @@ -30,62 +30,63 @@
30 30  |(% style="width:191px" %)13 - 14.30|(% style="width:220px" %)NEST Simulator|(% style="width:422px" %)[[https:~~/~~/nest-simulator.readthedocs.org/>>https://nest-simulator.readthedocs.org/]]
31 31  |(% style="width:191px" %)15 - 16.30|(% style="width:220px" %)NESTML|(% style="width:422px" %)[[https:~~/~~/nestml.readthedocs.org/>>https://nestml.readthedocs.org/]]
32 32  
33 -=== 1) NEST Desktop ===
34 +=== (% style="color:#1a202c; font-family:inherit; font-size:max(23px, min(27px, 15.8889px + 0.925926vw))" %)How to run NEST tutorials on EBRAINS lab?(%%) ===
34 34  
35 -The first part of the tutorial, we look at NEST Desktop.  As a goal we will create and analyze a balanced two-population network.
36 +1. (((
37 +Go to [[https:~~/~~/lab.jsc.ebrains.eu>>https://lab.jsc.ebrains.eu]]
38 +)))
39 +1. Change drive folder to `/drive/My Libraries/`.
40 +1. (((
41 +Next, clone a repo from the remote Git repository "[[https:~~/~~/gitlab.ebrains.eu/spreizer/nest-tutorials-2025.git>>https://gitlab.ebrains.eu/spreizer/nest-tutorials-2025.git]]" (Click on [[image:1755972938026-462.png||height="30" width="28"]]).
36 36  
37 -* [[https:~~/~~/nest-desktop.apps.ebrains.eu/>>https://nest-desktop.apps.ebrains.eu/]]
38 -* [[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/nest-desktop>>https://wiki.ebrains.eu/bin/view/Collabs/nest-desktop]]
39 39  
40 -=== 2) NEST Simulator ===
44 +[[image:1755972871032-845.png||data-xwiki-image-style-alignment="center"]]
41 41  
42 -The tutorial will then turn to Jupyter (Python) notebooks where we will start by creating spiking neurons. Here, we learn advanced steps to write code with NEST Simulation syntax. The scripting codes allow us to customize sophisticated use cases with NEST simulations. How to run examples on EBRAINS lab can be found here:
46 +
47 +)))
48 +1. (((
49 +After cloning, you find tutorials in `nest-tutorials-2025` folders.
43 43  
44 -* [[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/nest-simulator-examples/>>https://wiki.ebrains.eu/bin/view/Collabs/nest-simulator-examples/]]
51 +
52 +)))
53 +1. (((
54 +When you start a notebook, select kernel: "EBRAINS-25.02" (or later).
45 45  
46 -=== 3) NESTML ===
47 47  
48 -The last part is using NESTML to create custom neuron and synapse models for NEST Simulator. This will be done by formulating the learning model in the NESTML language syntax, and using the associated toolchain to generate code for NEST Simulator.
57 +[[image:https://wiki.ebrains.eu/bin/download/Collabs/nestml-tutorials/WebHome/1753786904178-861.png?rev=1.1||alt="1753786904178-861.png" data-xwiki-image-style-alignment="center"]]
49 49  
50 -* [[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/nestml-tutorials>>https://wiki.ebrains.eu/bin/view/Collabs/nestml-tutorials]]
59 +
60 +)))
61 +1. Have fun with it!
51 51  
63 +=== Modules ===
52 52  
53 -== How to run NEST tutorials on EBRAINS lab? ==
54 54  
55 -1. Go to [[https:~~/~~/lab.ebrains.eu>>https://lab.ebrains.eu]](((
56 -
57 -)))
58 -1. (((
59 -Next, clone a repo from the remote Git repository "[[https:~~/~~/gitlab.ebrains.eu/spreizer/nest-tutorials-2025.git>>https://gitlab.ebrains.eu/spreizer/nest-tutorials-2025.git]]" (See red arrow).
66 +(% class="wikigeneratedid" %)
67 +**1) NEST Desktop**
60 60  
69 +The first part of the tutorial, we look at NEST Desktop.  As a goal we will create and analyze a balanced two-population network.
61 61  
62 -[[image:1753784762571-499.png||data-xwiki-image-style-alignment="center"]]
71 +[[https:~~/~~/nest-desktop.apps.ebrains.eu/>>https://nest-desktop.apps.ebrains.eu/]]
63 63  
73 +More information: [[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/nest-desktop>>https://wiki.ebrains.eu/bin/view/Collabs/nest-desktop]]
64 64  
65 -{{info}}
66 -If you want to have it persistently, cloned it into your drive folder "/drive/My Libraries/".
67 -{{/info}}
68 68  
69 -
70 -)))
71 -1. (((
72 -After cloning, you can find tutorials in respective folders.
76 +(% class="wikigeneratedid" id="H329NESTML" %)
77 +**2) NEST Simulator**
73 73  
79 +The tutorial will then turn to Jupyter (Python) notebooks where we will start by creating spiking neurons. Here, we learn advanced steps to write code with NEST Simulation syntax. The scripting codes allow us to customize sophisticated use cases with NEST simulations. How to run examples on EBRAINS lab can be found here:
74 74  
75 -[[image:1753784886260-197.png||data-xwiki-image-style-alignment="center"]]
81 +More examples: [[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/nest-simulator-examples/>>https://wiki.ebrains.eu/bin/view/Collabs/nest-simulator-examples/]]
76 76  
77 -
78 -)))
79 -1. (((
80 -When you start a notebook, select kernel: "EBRAINS-25.02" (or later).
81 81  
84 +**3) NESTML**
82 82  
83 -[[image:1753786904178-861.png||data-xwiki-image-style-alignment="center"]]
84 84  
85 -
87 +The last part is using NESTML to create custom neuron and synapse models for NEST Simulator. This will be done by formulating the learning model in the NESTML language syntax, and using the associated toolchain to generate code for NEST Simulator.
88 +
89 +More tutorials: [[https:~~/~~/wiki.ebrains.eu/bin/view/Collabs/nestml-tutorials>>https://wiki.ebrains.eu/bin/view/Collabs/nestml-tutorials]]
86 86  )))
87 -1. Have fun with it!
88 -)))
89 89  
90 90  
91 91  
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