Changes for page TVB PIPELINE

Last modified by ldomide on 2024/05/20 08:56
From version 42.1
edited by michaels
on 2022/03/22 18:10
Change comment: Migrated property [owner] from class [Collaboratory.Apps.Collab.Code.CollabClass]
To version 39.1
edited by michaels
on 2021/04/16 21:31
Change comment: There is no comment for this version

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2 2  (((
3 3  (% class="container" %)
4 4  (((
5 -== TVB Image Processing Pipeline ==
5 += TVB Image Processing Pipeline =
6 6  
7 -=== [[Web-GUI to configure and start processing on HPC>>https://thevirtualbrain.apps.hbp.eu/||rel="noopener noreferrer" target="_blank"]] ===
7 +== [[Pipeline Video Tutorial>>https://drive.google.com/file/d/1VcXf3GX3KoihF4UzJQXzuGL4XWoqj5Jr/view||rel="noopener noreferrer" target="_blank"]] ==
8 8  
9 -==== [[Pipeline Video Tutorial>>https://drive.google.com/file/d/1VcXf3GX3KoihF4UzJQXzuGL4XWoqj5Jr/view||rel="noopener noreferrer" target="_blank"]] ====
9 +== [[Direct link to notebook>>https://drive.ebrains.eu/#my-libs/lib/42ac27a5-981e-4cf6-8ec5-d67b0c24bf09/notebooks||rel="noopener noreferrer" target="_blank"]] ==
10 10  
11 -==== [[Direct link to notebook>>https://drive.ebrains.eu/#my-libs/lib/42ac27a5-981e-4cf6-8ec5-d67b0c24bf09/notebooks||rel="noopener noreferrer" target="_blank"]] ====
12 -
13 13  [[image:8677353.png||style="float:left"]]
14 14  
15 15  
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22 22  (((
23 23  == Quick links ==
24 24  
25 -* [[TVB Pipeline Web GUI>>https://thevirtualbrain.apps.hbp.eu/]]
26 26  * [[TVB on EBRAINS (Short Version)>>https://www.youtube.com/watch?v=EETRdGskiWQ&t=2s||rel="noopener noreferrer" target="_blank"]]
27 27  * [[TVB on EBRAINS (Long Version)>>https://www.youtube.com/watch?v=VYhR9RNRIpA&t=2s||rel="noopener noreferrer" target="_blank"]]
28 28  * [[TVB on EBRAINS (Mini Videos)>>url:https://www.youtube.com/playlist?list=PLVtblERyzDeLcVv4BbW3BvmO8D-qVZxKf||rel="noopener noreferrer" target="_blank"]]
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30 30  
31 31  == What can I find here? ==
32 32  
33 -* a [[link>>https://thevirtualbrain.apps.hbp.eu/]] to the Web App for using the pipeline via GUI
34 -* the code underlying the pipeline including the orchestrator that manages processing on the supercomputer
35 35  * an IPython notebook that describes how to
36 36  ** use the TVB processing pipeline on one of the associated supercomputers using PyUnicore
37 37  ** upload MRI data to the supercomputer
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51 51  == How do I use it? ==
52 52  
53 53  * the pipeline is implemented by three Docker containers (mrtrix3_connectome, fmriprep and tvb_converter)
54 -* the containers are executed on supercomputers and operated via the [[web GUI>>https://thevirtualbrain.apps.hbp.eu/]] or via IPython notebooks
49 +* the containers are executed on supercomputers and operated via IPython notebooks
55 55  * Find the notebook by clicking on "Drive" in the left menu. The notebook is located in the folder "notebooks"
56 56  * Direct link to notebook: [[https:~~/~~/drive.ebrains.eu/#my-libs/lib/42ac27a5-981e-4cf6-8ec5-d67b0c24bf09/notebooks>>url:https://drive.ebrains.eu/#my-libs/lib/42ac27a5-981e-4cf6-8ec5-d67b0c24bf09/notebooks]]
57 57  * To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.
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TVB PIPELINE