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cnr-ibf-pa / hbp-bsp-issues

Ticketing system for developers/testers and power users of the Brain Simulation Platform of the Human Brain Project
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Hippocampus models container #437

Closed clupascu closed 5 years ago

clupascu commented 5 years ago

Details description of the task

We moved all the optimized models (including all the releases) from the github repository to the following container

https://object.cscs.ch/v1/AUTH_c0a333ecf7c045809321ce9d9ecdfdea/hippocampus_optimization/

Description of how to test it

Test/change model catalog, validation use cases, single cell building use cases and hippocampus models available for the use cases by fetching the data from the container so that we can permanently dismiss the github repository once everything works well with the CSCS container.

Known use cases using (Hippocampus) models in some way:

Use Case Migrated to CSCS?
Morphology Analysis Using Model Catalog
Rebuild an existing single hippocampal cell Using zip file
Build your own single hippocampal cell model using HBP data Using zip file
Single cell in silico experiment under current clamp Using Model Catalog

Any use cases missing?

appukuttan-shailesh commented 5 years ago

@antonelepfl : based on Carmen's comment you can tweak the filter to include the following: &app_id=89822 (corresponds to collab 12027).... I got 39 models &app_id=78121 & author="Rosanna Migliore" (corresponds to collab 9821).... I got 44 models

FYI: app_id corresponds to nav_id assigned by Collaboratory platform to model catalog app in that particular Collab.

clupascu commented 5 years ago

I counted many times and "Collab ID"=9821 & "Author(s)"="Rosanna Migliore" and I get only 43 models. Strange...

appukuttan-shailesh commented 5 years ago

I had a feeling there was something wrong so checked each entry manually.... web app vs API call. The web app isn't displaying "CA1_int_cNAC_060314AM2_20180120154747" https://collab.humanbrainproject.eu/#/collab/8123/nav/68489?state=model.f0b1bc0d-93d5-43a5-bf14-f1d1f4aaab28 in the search listing, while it was available via the API call (which is what Stefano would employ). Not sure why.

@apdavison : any thoughts on this?

@clupascu : I suppose for Stefano's work, he can go ahead with the 39 + 44 models?

clupascu commented 5 years ago

yes. He can go ahead with the 39 + 44 models.

appukuttan-shailesh commented 5 years ago

@clupascu : I had made the changes to the jupyter notebook mentioned here: https://collab.humanbrainproject.eu/#/collab/8123/nav/373602

I wasn't sure if you had cloned it or ran the same notebook itself. It is better to clone it again so that you have all the recent changes.

For now, I have edited the existing entries so that the authors are reflected correctly. The following have been assigned to "Paola Vitale":

59c74758-a1db-4680-9875-8bb8e985bb7f    **CA1_int_cAC_010710HP2_20190328145252**
bb2c91a8-776e-46ab-961c-ef83550584ae    **CA1_pyr_cACpyr_oh140807_A0_idG_20190328143451**
23c89c05-6239-4985-b246-d25905c6ef06    **CA1_int_cNAC_010710HP2_20190328163258**
8e99a0eb-5601-4d08-b6e4-bf3a0457afc5    **CA1_pyr_cACpyr_oh140807_A0_idJ_20190328142723**
fa20bcbc-52f5-4900-af20-b1d9e6b44dd2    **CA1_pyr_cACpyr_oh140807_A0_idH_20190328143152**
clupascu commented 5 years ago

ok. Thank you @appukuttan-shailesh

antonelepfl commented 5 years ago

Ok the updated list should be there. The 83 hippocampus models.

lbologna commented 5 years ago

Hello, I just made the repository (lbologna/bsp_data_repository) "Private" on Github. All watchers will not be able to follow the repository anymore, and all the stars will be lost. If you forked the repository, your forks will still be public

(@alex4200 I finalized the model fetching from the Model Catalog in the HH-Neuron-Builder, as discussed, and I needed to change the GUI a bit. Everything seems to be working to me, but please could you have a look? Thank you)

alex4200 commented 5 years ago

Use cases seem to work, closing ticket