From 2803d321f6aab65e62785f0ee70b0681000e0d40 Mon Sep 17 00:00:00 2001
From: ocrampal <ocrampal@ocrampal.com>
Date: Sun, 29 Mar 2026 13:31:08 +0200
Subject: [PATCH] CaTraces e eCB clearance

---
 neuron/BEH-AXO.md | 90 ++++++++++++++++++++++++++++++++++++++++++-----
 1 file changed, 81 insertions(+), 9 deletions(-)

diff --git a/neuron/BEH-AXO.md b/neuron/BEH-AXO.md
index fdf4f43..673abf4 100644
--- a/neuron/BEH-AXO.md
+++ b/neuron/BEH-AXO.md
@@ -242,6 +242,8 @@ context: AP-Ca2+Concentration
 
 #### NTrelease
 
+Non consideriamo le vesicles come liberate, ma direttamente gli NT. Questo permette di gestire la quantita' rilasciata di NT, invece di gestire un numero di vescicles. Nella realta' ciascuna vesicle contiene migliaia di NT. Qui mettiamo un floor a questo tipo di comprensione.
+
 Ci sono 4 casi che dipendono da RRP, Ca2+ e NT. L'idea e' che la quantita' di RRP sia il driver principale. Gli NT liberati sono di piu' al crescere di RRP e Ca2+ e di meno al crescere di NT. Gli NT nella sinapsi fanno da moderazione alla ulteriore liberazione di NT, ma non bloccano mai totalmente. NT suppression only matters when everything else is already at maximum — which is exactly the biological purpose: it prevents runaway release during peak activity, not during moderate activity.
 
 ![nt-release.png](.attachments/nt-release.png)
@@ -368,25 +370,95 @@ episode: NotAP-CaClearance
 
 Serve a dare la velocita' al trasporto di vesicles da RP a RRP. The biological meaning is that a synapse that has just been through a burst is primed for fast recovery — the molecular machinery for vesicle docking is already engaged, calcium-dependent priming factors are still elevated, and the system is in a ready state. A synapse that has been silent for several seconds has cooled down and replenishes slowly.
 
-So after one second of silence Tr_Ca has fallen to ~37% of its peak value, after two seconds to ~14%, after three seconds to ~5%. It asymptotes toward zero but never exactly reaches it. Between spikes, Ca2+ falls toward zero as the pumps clear it.
+So after one second of silence CaTrace has fallen to ~37% of its peak value, after two seconds to ~14%, after three seconds to ~5%. It asymptotes toward zero but never exactly reaches it. Between spikes, Ca2+ falls toward zero as the pumps clear it.
 
-spike → Ca_micro rises → Tr_Ca rises slowly
-                       → Tr_Ca stays elevated for ~1-2 s after burst
-                       → recruitment speed elevated during that window
-                       → RRP refills faster
-                       → more vesicles available for the next burst
-
-During a spike, Ca_micro jumps sharply. Tr_Ca rises but more slowly — it integrates rather than jumps. Between spikes, Ca_micro falls back toward zero as the pumps clear it. Tr_Ca also falls, but much more slowly because tau_Tr_Ca = 1000 ms — it remembers the spike for roughly a second after it happened. Over a burst of many spikes, Tr_Ca climbs steadily as each spike adds to the residual trace before the previous one has fully decayed. A long silence after a burst allows Tr_Ca to decay exponentially back toward zero.
 The result is that Tr_Ca encodes not the instantaneous calcium level but the recent history of calcium activity — a smoothed, time-averaged measure of how active the synapse has been over the past one to two seconds.
 
+##### CaTracesAccumulationFast: Episode
+
+```Gen
+episode: CaTracesAccumulationFast
+  contained_by: BEH-PRE
+
+  in_context: Ca2+Full
+  rf: ( active: 12x ) # fast
+
+  hypothesis: (Ca2+ full)
+    action: [CaTrace increase]
+    trace: None
+```
+
+##### CaTracesAccumulationSlow: Episode
+
+```Gen
+episode: CaTracesAccumulationSlow
+  contained_by: BEH-PRE
+
+  in_context: Ca2+Full
+  rf: ( active: 24x ) # Slow
+
+  hypothesis: (Ca2+ medium)
+    action: [CaTrace increase]
+    trace: None
+```
+
 ### sec: behaviors
 
+#### SecContext: Context
+
+Contestualizziamo in maniera Fixed ogni mezzo secondo?
+
+```Gen
+context: SeContext
+  contained_by: BEH-PRE
+
+  in_context: Fixed
+  rf: ( active: 600x )
+
+  condition: NOT (Rrp empty) 
+    out_context: RRPNotEmpty
+
+  condition: NOT (CaTrace empty) 
+    out_context: CaTracesNotEmpty
+
+  condition: NOT (eCB empy) 
+    out_context: eCBNotEmpty
+```
+
 #### eCB clearance
 
-Qui forse devo fare il flush e anche di CaTrace. Limita rilascio NT: Dipende da POST che tende a bloccare rialascio di NT se non servono
+eCB dipende da POST. Tende a modulare l'entrata di Ca2+ degli VGCC.
+
+Qui non facciamo un flush di eCB, riduciamo ogni mezzo secondo (context) di un RF di questo episodio.
+
+```Gen
+episode: eCBClearance
+  contained_by: BEH-PRE
+
+  in_context: eCBNotEmpty
+  rf: ( active: 24x ) # Slow
+
+  hypothesis: NOT (eCB empty)
+    action: [eCB decrease]
+    trace: None
+```
 
 #### CaTraces clearance
 
+Qui non facciamo un flush di Catrace, riduciamo ogni mezzo secondo (context) di un RF di questo episodio.
+
+```Gen
+episode: CaTracesClearance
+  contained_by: BEH-PRE
+
+  in_context: CaTracesNotEmpty
+  rf: ( active: 24x ) # Slow
+
+  hypothesis: NOT (CaTrace empty)
+    action: [CaTRace decrease]
+    trace: None
+```
+
 #### RP->RRP shuttling
 
 How RP is moved to RRP