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2021 10 11 Open NEST Developer Video Conference

Dennis Terhorst edited this page Oct 11, 2021 · 9 revisions

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Agenda

  1. Welcome
  2. Review of NEST User Mailing List
    • new EBRAINS support ticket
  3. Project team round
  4. In-depth discussion
    • (maybe: plasticity models via NESTML)
    • (maybe: NEST wheels)

Mailing list

Project team round

Here we discuss topics that need broader attention, for example questions that came up but are outside a single project's scope, larger planned changes/PRs that affect all teams or pending work that is blocked by external factors.

  1. Models / NESTML
    • STDP DOPA synapse now proof-of-concept exists
    • clopath synapse
      • needs support for delayed values in ODEs, requires extension of NESTML x[t-delay], work in progress
      • native C++ code has a very boiled down ODE that is much simpler, so full-general "delayed value" might not be needed
      • currently only fixed delays are being looked at in NESTML
  2. PyNEST
    • nothing to report
  3. Kernel
    • nothing to report
  4. Installation
    • found issue in conda-forge packaging in NEST-3.x packages (not for nest-2.x packages)
      • related to sli-init.sli paths causing exception
    • NEST on wheels (see in-depth)
  5. Infrastructure
    • deployment of NESTML now also via pypi, help appreciated with Many-Linux setup of wheels.
  6. Documentation
    • nothing to report
  7. EBRAINS
    • support request on mailing list (only arrived at Charl) `nest.Create("volume_transmitter")´
  8. (Feature) Automated Testing
    • nothing to report
  9. (Feature) Extension Module System
    • nothing to report

In-depth discussion

Plasticity models via NESTML

  • goal is to move the models for Cerebellum from nest-2.x to nest-3.x
  • requires special kernel for update of spikes
  • custom volume_transmitter
  • currently an extension module that would need to be migrated to the new layout, but possibly implementable in NESTML

ref. https://github.com/dbbs-lab/cereb-nest and https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4773604/

NEST wheels

  • worked on wheels
    • nest has to belinked against static python
    • changing prefix
    • currently using legacy setuptools builder, might need to change
  • currently cmake prefix ./install
  • need hackathon for 2021-10-22

General wheel-buil

builder to build binary extension usually setuptools builder using setup.py

  • specify "binary extension", need to override some classes when using cmake (see #2170)
  • putting files in the right locations is usually tricky (dir up / dir down / magic names)
  • will build binary packages inside the "many-linux image", for each distribution
  • wheel is built on the github CI and can be automatically uploaded to PyPI
    • pypi

NESTML grammars

  • Q: why generate parser and lexer with Python2
  • A: Should work with Python3. Please report if it doesn't.
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