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Changes for page Fast_TVB

Last modified by michaels on 2022/05/12 14:31
From version 9.1
edited by michaels
on 2020/07/08 16:12
Change comment: Uploaded new attachment "fast_tvb.png", version {1}
To version 6.1
edited by michaels
on 2020/07/08 16:04
Change comment: There is no comment for this version

Summary

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2 2  (((
3 3  (% class="container" %)
4 4  (((
5 -= High-speed parallel brain network simulation =
5 += My Collab's Extended Title =
6 6  
7 -A fast implementation of The Virtual Brain brain network simulator
7 +My collab's subtitle
8 +)))
9 +)))
8 8  
9 -[[Direct link to notebook>>url:https://drive.ebrains.eu/#my-libs/lib/f5e40b3b-91cb-4671-9178-4d2673ad8ac4]]
11 +(% class="row" %)
12 +(((
13 +(% class="col-xs-12 col-sm-8" %)
14 +(((
15 += What can I find here? =
10 10  
11 -[[image:4144.jpeg]]
17 +* Notice how the table of contents on the right
18 +* is automatically updated
19 +* to hold this page's headers
12 12  
13 -== Quick links ==
21 += Who has access? =
14 14  
15 -* [[TVB on EBRAINS (Short Version)>>url:https://www.youtube.com/watch?v=_G_DjRb1ams&feature=youtu.be]]
16 -* [[TVB on EBRAINS (Long Version)>>url:https://www.youtube.com/watch?v=eZrh6ztGFAY&feature=youtu.be]]
17 -* [[TVB on EBRAINS (Mini Videos)>>url:https://www.youtube.com/playlist?list=PLVtblERyzDeLcVv4BbW3BvmO8D-qVZxKf]]
18 -* [[User Story>>url:https://wiki.ebrains.eu/bin/view/Collabs/user-story-tvb/]]
19 -
20 -== What can I find here? ==
21 -
22 -* an IPython notebook that describes how to
23 -** pull the TVB-C container into one of the associated supercomputers using PyUnicore
24 -** upload model data to the supercomputer
25 -** set up and run simulations
26 -** download simulation results
27 -
28 -== How do I use it? ==
29 -
30 -* the simulation code is implemented as a Docker container
31 -* the container is executed on supercomputers and operated via IPython notebooks
32 -* Find the notebook by clicking on "Drive" in the left menu. The notebook is called "TVB_C.ipynb"
33 -* To use the notebook, download it onto your local filesystem, create a new Collab and upload it there.
34 -* Then, head over to [[https:~~/~~/lab.ebrains.eu/>>url:https://lab.ebrains.eu/]] to edit and run your notebook.
35 -* Depending on whether you created a public or a private notebook it will be accessible in either "drive/Shared with all" or "drive/Shared with groups'"
36 -
37 -== Metadata ==
38 -
39 -|=(((
40 -|=Category|tool
41 -|=Tags|(((
42 -* [[brain-network-model>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
43 -* [[TVB>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
44 -* [[high-performance>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
45 -* [[parallel>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
46 -* [[HPC>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
47 -* [[supercomputer>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
48 -* [[brain-simulation>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
49 -* [[connectome>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
50 -* [[functional-connectivity>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
51 -* [[The-Virtual-Brain>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
23 +Describe the audience of this collab.
52 52  )))
53 -|=Partners|(((
54 -* Charité Universitätsmedizin Berlin [[CHARITE>>url:https://services.humanbrainproject.eu/software-catalog/catalog/?ctx=97d59245-adce-42c4-8b50-d22587071fcd&ctxstate=search%2Ctvb]]
55 -)))
56 -|=Maintainers|(((
57 -* [[Petra Ritter>>path:mailto:petra.ritter@charite.de]]
58 -* [[Michael Schirner>>path:mailto:michael.schirner@charite.de]]
59 -)))
60 -|=Homepage|[[https:~~/~~/hub.docker.com/r/thevirtualbrain/fast_tvb>>url:https://hub.docker.com/r/thevirtualbrain/fast_tvb]]
61 -|=Documentation|[[https:~~/~~/collab.humanbrainproject.eu/#/collab/65304/nav/444404>>url:https://collab.humanbrainproject.eu/#/collab/65304/nav/444404]]
62 -|=Support|[[michael.schirner@charite.de>>path:mailto:michael.schirner@charite.de]]
63 -|=Source Code|[[https:~~/~~/hub.docker.com/r/thevirtualbrain/fast_tvb>>url:https://hub.docker.com/r/thevirtualbrain/fast_tvb]]
64 -|=Download Page|[[https:~~/~~/hub.docker.com/r/thevirtualbrain/fast_tvb>>url:https://hub.docker.com/r/thevirtualbrain/fast_tvb]]
65 -|=License|GPL3
66 -|=Current Version|1.0
67 -|=All Versions|(((
68 -* 1.0
69 -)))
70 -)))
71 71  
72 -== Publications using TVB C ==
73 73  
74 -* [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/29308767>>url:https://www.ncbi.nlm.nih.gov/pubmed/29308767]]
75 -* [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/32194282>>url:https://www.ncbi.nlm.nih.gov/pubmed/32194282]]
76 -* [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/29911173>>url:https://www.ncbi.nlm.nih.gov/pubmed/29911173]]
77 -* [[https:~~/~~/www.thieme-connect.com/products/ejournals/html/10.1055/s-0039-3403020>>url:https://www.thieme-connect.com/products/ejournals/html/10.1055/s-0039-3403020]]
78 -* [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=31316116>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=31316116]]
79 -* [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=30035018>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=30035018]]
80 -* [[https:~~/~~/www.ncbi.nlm.nih.gov/pubmed/?term=27041212>>url:https://www.ncbi.nlm.nih.gov/pubmed/?term=27041212]]
81 -
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28 +(((
82 82  {{box title="**Contents**"}}
83 83  {{toc/}}
84 84  {{/box}}
85 -)))
86 -)))
87 87  
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89 -(((
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91 -(((
92 92  
93 93  )))
94 94  )))
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Fast_TVB