Re: [TVB] Need help in running pre-processing pipeline in NSG server

[Julie Courtiol]

Hi Pallab,

This code is not up to date.

Please report to our service on EBRAINS:

https://ebrains.eu/service/the-virtual-brain/#process_mri_data_sets_tvb

The code is running on a docker implemented on HPCs.

Best,

Julie

Best regards,

Dr. Julie Courtiol

Scientific Lab Manager, Brain Simulation Section

Charité - Universitätsmedizin Berlin

Berlin Institut of Health

Brain Simulation

Robert-Kosh-Platz 4

Charitéplatz 1 | 10117 Berlin | Germany

courtio...@gmail.com - www.brainsimulation.org

Twitter: @Courtioljulie

LinkedIn: juliecourtiol

Le 29 mai 2022 à 07:49, Pallab K <kakotyp...@gmail.com> a écrit :

Hi,

I intend to use Parkinson's Progression Markers Initiative (PPMI) Data in TVB which have files in the three different imaging modalities (anatomical, DTI, fMRI).

I have the code (https://github.com/BrainModes/TVB-empirical-data-pipeline) for conversion to TVB format. But, since I don't have enough computational power at hand to run the code, I intend to use it on the NSG server or any computational resource that might be available online.

Please guide me towards the steps to run the code for data-conversion to TVB.

Regards,

Pallab

Gauhati University 

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[Pallab K]

Hi Julie,

I proceeded accordingly for implementing the 'TVB_Pipeline_v1_encryption.pynb' according to the steps given. However, I am failing to get the supercomputer identifier for ' Fenix CH - Swiss National Supercomputing Center (CSCS)' , which is not allowing me to run the code.

Error Screenshot attached below:

Please help me in setting the right identifier of the super-computer I am using 'Fenix CH - Swiss National Supercomputing Center (CSCS)'. Hope I am doing this the right way. Apologies for trivial posts

Regards,

Pallab

[WOODMAN Michael]

hi

The name for the site has since changed to "DAINT-CSCS".

cheers,

Marmaduke

On 2 Jun 2022, at 20:27, Pallab K <kakotyp...@gmail.com> wrote:

Hi Julie,

I proceeded accordingly for implementing the 'TVB_Pipeline_v1_encryption.pynb' according to the steps given. However, I am failing to get the supercomputer identifier for ' Fenix CH - Swiss National Supercomputing Center (CSCS)' , which is not allowing me to run the code.

Error Screenshot attached below:

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<2.png>

To view this discussion on the web visit https://groups.google.com/d/msgid/tvb-users/885e43d0-9b58-4161-8734-5a4ed43b6711n%40googlegroups.com.
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