Last modified by teodoramisan on 2026/02/13 10:11
From version 63.1
edited by teodoramisan
on 2026/02/12 11:14
Change comment: There is no comment for this version
To version 59.1
edited by teodoramisan
on 2025/12/15 16:54
Change comment: There is no comment for this version

Summary

Details

Page properties
Content
... ... @@ -4,11 +4,11 @@
4 4  
5 5  This extension is also installed already in EBRAINS lab, where it can be tested directly.
6 6  
7 -== Jupyter Lab Extension for building and executing TVB and VBI Workflows on EBRAINS ==
7 +== Jupyter Lab Extension for building and executing TVB Workflows on EBRAINS ==
8 8  
9 9  == Purpose ==
10 10  
11 -This is a Jupyter Lab extension that offers graphical support for TVB and VBI workflows. It is already available in the EBRAINS Lab and it allows users to configure and execute TVB simulations and VBI inference workflows directly from a GUI, while drastically reducing the complexity of configuring them inside a Jupyter Lab notebook. Try edit
11 +This is a Jupyter Lab extension that offers graphical support for TVB workflows. It is already available in the EBRAINS Lab and it allows users to configure and execute TVB simulations directly from a GUI, while drastically reducing the complexity of configuring them inside a Jupyter Lab notebook.
12 12  
13 13  {{html}}
14 14  <iframe width="1200" height="450" src="https://www.youtube.com/embed/-cjZOsU6PBg" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" allowfullscreen></iframe>
... ... @@ -124,16 +124,19 @@
124 124  To use this functionality, drag any model from the **TVB_MODELS** (inside the components tray) into the workflow area. Then right click on the model and select the **Open Viewer** option:
125 125  
126 126  
127 -[[image:open-viewer-on-models.png||alt="image-20221116125354-2.png" data-xwiki-image-style-alignment="center" height="800" width="1130"]]
127 +(% style="text-align:center" %)
128 +[[image:image-20221116125354-2.png||height="800" width="1130"]]
128 128  
129 129  
130 130  A new Jupyter tab should open, which contains a read-only Jupyter notebook. After following the instructions provided there, you should be able to see the Phase Plane widget associated with this particular model.
131 131  
132 -[[image:image-20221116125822-1.png||data-xwiki-image-style-alignment="center" height="800" width="821"]]
133 +(% style="text-align:center" %)
134 +[[image:image-20221116125822-1.png||height="800" width="821"]]
133 133  
134 134  After configuring the parameters with the desired values, go to the Exports tab of the widget and click on **Export model configuration**. Now all you have to do is to go back to the tab where your workflow is and you will see that the model will have values set for all the parameters that you modified in the Phase Plane widget (that is all the parameters there were assigned values different than the default ones).
135 135  
136 -[[image:export-model-configuration.png||alt="image-20221116130425-1.png" data-xwiki-image-style-alignment="center" height="900" width="1069"]]
138 +(% style="text-align:center" %)
139 +[[image:image-20221116130425-1.png||height="900" width="1069"]]
137 137  
138 138  
139 139  === 2. Visualize time series resulted from simulations ===
... ... @@ -140,7 +140,7 @@
140 140  
141 141  This functionality is available for the **StoreResultsToDrive** component. Right click on the **StoreResultsToDrive** and select the **Open Viewer** option:
142 142  
143 -[[image:open-viewer-button.png||alt="view.png"]]
146 +[[image:view.png]]
144 144  
145 145  A new Jupyter tab should open, which contains a read-only Jupyter notebook. After running the cell, you should be able to see the **TimeSeriesBrowser **widget with the //**Collab**// and //**folder**// you have chosen for the **StoreResultsToDrive **component already loaded.
146 146  
... ... @@ -148,7 +148,7 @@
148 148  
149 149  Next, you should choose which time series file to display and click the **View time series button**.
150 150  
151 -[[image:timeseries-plotly.png||alt="view3.png"]]
154 +[[image:view3.png]]
152 152  
153 153  == ==
154 154  
export-model-configuration.png
Author
... ... @@ -1,1 +1,0 @@
1 -XWiki.teodoramisan
Size
... ... @@ -1,1 +1,0 @@
1 -223.1 KB
Content
open-viewer-button.png
Author
... ... @@ -1,1 +1,0 @@
1 -XWiki.teodoramisan
Size
... ... @@ -1,1 +1,0 @@
1 -248.9 KB
Content
open-viewer-on-models.png
Author
... ... @@ -1,1 +1,0 @@
1 -XWiki.teodoramisan
Size
... ... @@ -1,1 +1,0 @@
1 -191.4 KB
Content
timeseries-plotly.png
Author
... ... @@ -1,1 +1,0 @@
1 -XWiki.teodoramisan
Size
... ... @@ -1,1 +1,0 @@
1 -318.7 KB
Content
Public

TVB Widgets