Changes for page TVB PIPELINE

Last modified by ldomide on 2024/05/20 08:56
From version 40.1
edited by michaels
on 2021/11/30 10:56
Change comment: There is no comment for this version
To version 43.1
edited by michaels
on 2022/04/08 23:43
Change comment: Update collab owner property to michaels

Summary

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Content
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4 4  (((
5 5  == TVB Image Processing Pipeline ==
6 6  
7 -=== [[Web-GUI to configure and start processing on HPC>>https://thevirtualbrain.apps.hbp.eu/||target="_blank"]] ===
7 +=== [[Web-GUI to configure and start processing on HPC>>https://thevirtualbrain.apps.hbp.eu/||rel="noopener noreferrer" target="_blank"]] ===
8 8  
9 9  ==== [[Pipeline Video Tutorial>>https://drive.google.com/file/d/1VcXf3GX3KoihF4UzJQXzuGL4XWoqj5Jr/view||rel="noopener noreferrer" target="_blank"]] ====
10 10  
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22 22  (((
23 23  == Quick links ==
24 24  
25 +* [[TVB Pipeline Web GUI>>https://thevirtualbrain.apps.hbp.eu/]]
25 25  * [[TVB on EBRAINS (Short Version)>>https://www.youtube.com/watch?v=EETRdGskiWQ&t=2s||rel="noopener noreferrer" target="_blank"]]
26 26  * [[TVB on EBRAINS (Long Version)>>https://www.youtube.com/watch?v=VYhR9RNRIpA&t=2s||rel="noopener noreferrer" target="_blank"]]
27 27  * [[TVB on EBRAINS (Mini Videos)>>url:https://www.youtube.com/playlist?list=PLVtblERyzDeLcVv4BbW3BvmO8D-qVZxKf||rel="noopener noreferrer" target="_blank"]]
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29 29  
30 30  == What can I find here? ==
31 31  
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
32 32  * an IPython notebook that describes how to
33 33  ** use the TVB processing pipeline on one of the associated supercomputers using PyUnicore
34 34  ** upload MRI data to the supercomputer
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48 48  == How do I use it? ==
49 49  
50 50  * the pipeline is implemented by three Docker containers (mrtrix3_connectome, fmriprep and tvb_converter)
51 -* the containers are executed on supercomputers and operated via the [[web GUI>>https://thevirtualbrain.apps.hbp.eu/]] or via IPython notebooks
54 +* the containers are executed on supercomputers and operated via the [[web GUI>>https://thevirtualbrain.apps.hbp.eu/]] or via IPython notebooks
52 52  * Find the notebook by clicking on "Drive" in the left menu. The notebook is located in the folder "notebooks"
53 53  * 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]]
54 54  * To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.
Collaboratory.Apps.Collab.Code.CollabClass[0]
owner
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1 +michaels
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TVB PIPELINE