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BlueBrain / neurodamus

A BBP Simulation Control application for NEURON
https://neurodamus.readthedocs.io
Apache License 2.0
8 stars 7 forks source link

Allow API configuration to preserve the axons during setup #155

Closed ferdonline closed 1 month ago

ferdonline commented 5 months ago

Context

With BlueConfig one could ask a circuit to preserve the axons in full detail via a config entry DetailedAxons.

However, that options was never made globally available via a flag, which enables it also for Sonata simulations.

This PR covers that.

Scope

Testing

in the testing environment under test/ngv_wip with the patched emodels_atp_1p4 one must see

Script:

nd = neurodamus.Neurodamus(
    "simulation_config.json",
    keep_axon=True,
    auto_init=False,
    cleanup_atexit=False,
    logging_level=2,
)
nd.init()
nd.run()

Output:

[VERB]  -> Keeping axons ENABLED
...
[INFO] Executing actions after stdinit...
[INFO] Now deleting the axon!
REPLACING AXON!
[INFO] Now deleting the axon!
REPLACING AXON!

Review

bbpbuildbot commented 5 months ago

Logfiles from GitLab pipeline #206205 (:white_check_mark:) have been uploaded here!

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cattabiani commented 5 months ago

I wrote here my findings:

https://bbpteam.epfl.ch/project/issues/browse/BBPBGLIB-984.

Let me know if you prefer the reports directly here instead

bbpbuildbot commented 4 months ago

Logfiles from GitLab pipeline #210605 (:white_check_mark:) have been uploaded here!

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bbpbuildbot commented 3 months ago

Logfiles from GitLab pipeline #215044 (:white_check_mark:) have been uploaded here!

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cattabiani commented 3 months ago

not from me

bbpbuildbot commented 3 months ago

Logfiles from GitLab pipeline #216522 (:white_check_mark:) have been uploaded here!

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bbpbuildbot commented 2 months ago

Logfiles from GitLab pipeline #219662 (:white_check_mark:) have been uploaded here!

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bbpbuildbot commented 2 months ago

Logfiles from GitLab pipeline #220785 (:white_check_mark:) have been uploaded here!

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bbpbuildbot commented 1 month ago

Logfiles from GitLab pipeline #223383 (:white_check_mark:) have been uploaded here!

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bbpbuildbot commented 1 month ago

Logfiles from GitLab pipeline #223382 (:white_check_mark:) have been uploaded here!

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