openbraininstitute / neurodamus / 26155495341

91%

Build Type

push

github

Committed by web-flow

Commit Message

For Extracellular stimulus, switch from using vector.play to a PointProcess which computes the contribution during runtime, avoiding big memory allocation (#521)

## Context
The initial implementation for extracellular stimulus use vector play
which consumed a lot of memory since the values were precomputed for the
entire sim duration / stim duration. This switches to use nmodl to
calculate the applied values during runtime. This only supports one
ElectrodeSource at the moment, with support for additional ones to be
added in a subsequent PR

## Scope
For each segment stimulated, a single EFieldIntegrator is instantiated
which is passed the parameters and stored as IvocVec. Using "BEFORE
BREAKPOINT" to trigger the calculation, compute the contribution, and
set the referenced value.

## Testing
Tests for single ElectrodezSource are adapted to run the configured mod
and gather the computed _e_ref value in order to be compared against a
reference
Tests for multiple ElectrodeSources are disabled until that supported is
restored

## Review
* [ ] PR description is complete
* [ ] Coding style (imports, function length, New functions, classes or
files) are good
* [ ] Unit/Scientific test added
* [ ] Updated Readme, in-code, developer documentation

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Co-authored-by: Weina Ji <weina.ji@openbraininstitute.org>

Coverage Stats

19 of 21 new or added lines in 1 file covered. (90.48%)

7 existing lines in 2 files now uncovered.

7786 of 8542 relevant lines covered (91.15%)

2.85 hits per line