v13

elements/neuron/appunti/2026-06-22-biological-reference_v12.md

@@ -1,15 +1,15 @@
-# Tripartite Synapse — Biological Reference (companion to v12 pseudocode)
+# Tripartite Synapse — Biological Reference (companion to v13 pseudocode)
 
-> Companion to `tripartite_synapse_v12_pseudocode.md`. Explains the biology each variable and
-> behavior conflates. Variable meanings are unchanged; v12 only refined the pseudocode
-> grammar (SENSE→TRACE, new ADJUST group, EVALUATE reordered before ADJUST/DECAY, NIGHT
-> labeled with the same groups, aligned group headers). The ADJUST group makes explicit the
-> step where a component computes its operating parameters — release drive, firing threshold,
-> propagation reliability, lactate-allocation weights — from its structure, its current
-> traces, and arrived neuromodulators, before it acts.
-> conflates biologically. The pseudocode aggregates many molecular details into single
-> variables for clarity; here each aggregation is unpacked. Read the pseudocode for the
-> logic; read this when you need to know what a variable physically represents.
+> Companion to `tripartite_synapse_v13_pseudocode.md`. Explains the biology each variable and
+> behavior conflates. Variable meanings are unchanged; v13 refined the model logic:
+> per-spike calcium deposit (frequency emergent, not a parameter); BEHAVE now separates a FUEL
+> shortfall (deposits endurance need) from an OCCUPANCY/structure shortfall (short-term
+> depression — no endurance, since more fuel would not help); the endurance feedback term
+> (retrograde NO) appears only at the presynapse, where such a signal actually arrives, while
+> every other component's endurance proxy is own-state only; EVALUATE merged into TRACE
+> (judging a behavior is maintaining a trace); shipment is modelled as a transit-delayed flow
+> (axonal/dendritic transport takes a characteristic time, so distal targets receive later),
+> reflecting the general principle that every flow has a timescale.
 
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