Conserve biochemical biomass across growth, division, and mechanics - #9
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marpaia
added this pull request to stack #10
September 10, 2026 10:35
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Growth, dilution, division, and uptake need one conserved biochemical measure. This PR defines B = pir²(length + 2*r), distinguishes it from geometric capsule volume, and exposes the realized per-step change through the native
cell_volume_change_raterate instruction on CPU, Metal, and CUDA. Contact relaxation without an explicit growth increment preserves length.Division conserves B and intracellular concentration times B. New regressions check asymmetric division, realized nutrient yield, dilution, checkpoint continuation, and mechanical biomass preservation. ADR 0024 states the coarse model and compatibility boundary.
This is the prerequisite for the microfluidics stack. Validation includes CPU/Metal biomass tests and native conformance; the complete revised stack passes 23 native tests and 327 Python tests, plus the five pinned legacy trajectory scenarios on CPU and Metal. CUDA 12.8.1 compilation passes; NVIDIA runtime was unavailable. No biological calibration or CUDA runtime result is claimed.