From 93232d708406ffc8c22af249dc203db5e04f032b Mon Sep 17 00:00:00 2001
From: ocrampal <ocrampal@ocrampal.com>
Date: Mon, 25 May 2026 12:02:06 +0200
Subject: [PATCH] revisione sintassi

---
 elements/neuron/presynapse.md | 135 +++++++++++++++++++---------------
 organs/tectum/tectum.md       |  13 ++--
 2 files changed, 82 insertions(+), 66 deletions(-)

diff --git a/elements/neuron/presynapse.md b/elements/neuron/presynapse.md
index 1665f6b..0d0d314 100644
--- a/elements/neuron/presynapse.md
+++ b/elements/neuron/presynapse.md
@@ -7,59 +7,70 @@ include_toc: true
 Qui comprendiamo:
 
 - PRESYNAPSE: Presynapse
-- VGCC-PRE-TUN: la modulazione della quantita' di VGCC-PRE
 - VGCC-PRE: Voltage-Controlled Gated Channels
 
-## PRESYNAPSE: Comprehension
+## PRESYNAPSE
 
 ```Gen
 PRESYNAPSE
+
   type: comprehension
 
   expand_comprehension: 
-    &VGCC-PRE_ALL: VGCC-PRE ( full: 10x, active: 5x, empty: 2x )
-  
+    _VgccPre: VGCC-PRE [ full: 10x, active: 5x, empty: 2x ]
+
   instantiate_container:
-    PRESYNAPSE-BEH []
-    VGCC-PRE-TUN [pass: &VGCC-PRE_ALL]
+    @: $BehaviorPre []
+    @: $TunVgccPre [pass: _VgccPre]
 ```
 
-### PRESYNAPSE-BEH: Container
+### $BehaviorPre
 
 **Tubs:**
 
-- **Ca2+**: Calcium Ion entering the Presynapse when VCGG open that influence NT release. Normally returns to ~0 between spikes; stays elevated when pumps fail. They are key to check the concentration, release NT and modulation
-- **Rrp**: Readily Releasable Pool: The Readily Releasable Pool consists of the vesicles that are "docked" and "primed" at the active zone of the synapse. This pool is very small (usually only about 0.5% to 5% of total vesicles) and can be exhausted quickly during high-frequency firing, leading to "short-term depression" of the signal. Here we consider them as NT ready to be released.
-- **Rp**: Reserve Pool: The bulk of the vesicles held further back in the terminal, often tethered by a protein called synapsin. These are only mobilized during intense, prolonged stimulation. This makes up the vast majority of the vesicles (up to 80% or 90%). Here we consider them NT in reserve that can be transfered to RRP and created using Glutamine from Astorcyte.
-- **NT**: Neuro Transmitter, released in the synapse by the vescicles. The release increses NT and decreases RRP
-- **CaTraces**: sono le tracce di permanenza della concentrazione di Ca2+. Servono alla modulazione (TUN)
-- **eCB**: retrograde signal updates from postsynapsis (postsynaptic input)
+- **_Ca2+**: Calcium Ion entering the Presynapse when VCGG open that influence NT release. Normally returns to ~0 between spikes; stays elevated when pumps fail. They are key to check the concentration, release NT and modulation
+- **_Rrp**: Readily Releasable Pool: The Readily Releasable Pool consists of the vesicles that are "docked" and "primed" at the active zone of the synapse. This pool is very small (usually only about 0.5% to 5% of total vesicles) and can be exhausted quickly during high-frequency firing, leading to "short-term depression" of the signal. Here we consider them as NT ready to be released.
+- **_Rp**: Reserve Pool: The bulk of the vesicles held further back in the terminal, often tethered by a protein called synapsin. These are only mobilized during intense, prolonged stimulation. This makes up the vast majority of the vesicles (up to 80% or 90%). Here we consider them NT in reserve that can be transfered to RRP and created using Glutamine from Astorcyte.
+- **_NT**: Neuro Transmitter, released in the synapse by the vescicles. The release increses NT and decreases RRP
+- **_CaTraces**: sono le tracce di permanenza della concentrazione di Ca2+. Servono alla modulazione (TUN)
+- **_eCB**: retrograde signal updates from postsynapsis (postsynaptic input)
 
 ```Gen
-PRESYNAPSE-BEH
+$BehaviorPre
 
   type: container
   activity_scope: !DAY
 
   tub_local:
-    - Ca2+ ( full: 60x, active: 30x, empty: 0x )
-       # developed_by: DEV-PRE-CA2+FULL from DEV.N
-    - Rrp ( full: 30x, active: 15x, empty: 0x )
-       # developed_by: DEV-PRE-RRP-FULL from DEV.N
-    - Rp ( full: 30x, active: 15x, empty: 0x )
-       # developed_by: DEV-PRE-RRP-FULL from DEV.N
-    - CaTraces ( full: 50x, active: 0x, empty: 0x )
+    _Ca2+: TUB [ full: 60x, active: 30x, empty: 0x ]
+    _Rrp: TUB [ full: 30x, active: 15x, empty: 0x ]
+    _Rp: TUB [ full: 30x, active: 15x, empty: 0x ]
+    _CaTraces: TUB [ full: 50x, active: 0x, empty: 0x ]
 
   tub_intricated:
-    - NT ( contained_by: SYN ) 
-    - ATP ( contained_by: ? ) 
-    - eCB ( contained_by: POST ) 
+    _NT: contained_by [ SYN ] 
+    _ATP: contained_by [?] 
+    _eCB: contained_by [POST]
 
   context_intricated:
-  - AP_ctx ( contained_by: SOMA ) 
+    $AP: contained_by [SOMA]
+
+  snippets:
+
+    # &AP
+    NTreleaseLow: [RF: active 12x, type: accumulator]
+    NTreleaseMedium [RF active 9x, type: accumulator]
+    NTreleaseHigh: [RF active 9x, type: accumulator]
+
+    Ca2+TracesAccLow: [RF active 3x, type: accumulator]
+    Ca2+TracesAccMedium: [RF active 6x, type: accumulator]
+    Ca2+TracesAccHigh: [RF active 10x, type: accumulator]
+
+    # NOT &AP
+    eCBClearence: RF [active: 24x]
 ```
 
-#### AP_ctx
+#### &AP
 
 Il rilascio di NT lo facciamo nel contesto di AP. Biologicamente dovrebbe avvenire solo in base alle concentrazioni, quindi anche al difuori degli AP.
 
@@ -77,23 +88,21 @@ NT empty. Qui siamo contestualizzati se Ca2+ full, il che dovrebbe significare i
 
 In tutti i casi di NT
 
-##### NTreleaseLow: ( active: 12x ) accumulator
-```Gen
-NTreleaseLow: ( active: 12x ) # Low
-  type: accumulator
-  contained_by: PRESYNAPSE-BEH
+##### NTreleaseLow
 
-  in_context: AP_ctx
-    hypothesis: ( Ca2+ mediumness ) AND ( Rrp mediumness ) AND NOT( ATP empty )
-      action: [Rrp decrease, Nt increase, ATP decrease]
+```Gen
+NTreleaseLow
+
+  in_context: &AP
+    hypothesis: ( _Ca2+ mediumness ) AND ( _Rrp mediumness ) AND NOT( _ATP empty )
+      action: [_Rrp decrease, _Nt increase, _ATP decrease]
       trace: None
 ```
 
-##### NTreleaseMedium: ( active: 9x ) accumulatorv
+##### NTreleaseMedium
+
 ```Gen
-NTreleaseMedium: ( active: 9x ) # Medium
-  type: accumulator
-  contained_by: PRESYNAPSE-BEH
+NTreleaseMedium
 
   in_context: AP_ctx
     hypothesis: (( Ca2+ fullness ) AND ( Rrp mediumness ) OR 
@@ -103,11 +112,10 @@ NTreleaseMedium: ( active: 9x ) # Medium
       trace: None
 ```
 
-##### NTreleaseHigh: ( active: 3x ) accumulator
+##### NTreleaseHigh
+
 ```Gen
-NTreleaseHigh: ( active: 3x ) # High
-  type: accumulator
-  contained_by: PRESYNAPSE-BEH
+NTreleaseHigh
 
   in_context: AP_ctx
     hypothesis: ( Ca2+ fullness ) AND ( Rrp fullness )  AND 
@@ -116,24 +124,20 @@ NTreleaseHigh: ( active: 3x ) # High
         trace: None
 ```
 
-##### Ca2+TracesAccumulationLow: accumulator
+##### Ca2+TracesAccLow
+
+Serve a:
 
-Serve a: 
 - fare il tuning dei VGCC
-- dare la velocita' al trasporto di vesicles da RP a RRP, anche se non avendo ancora compreso ATP, la velocita' non cambia molto la sostanza. 
+- dare la velocita' al trasporto di vesicles da RP a RRP, anche se non avendo ancora compreso ATP, la velocita' non cambia molto la sostanza.
 - le tracce vengono eliminate quando il neurone e' in pausa, lontano da uno spike train, TunPossible_ctx
 - Abbiamo 3 tracce, high, medium and low. Andiamo a verificare una combinazione di queste per fare la modulazione
 - RF e' a 10, questo dovrebbe essere un RF di campionamento durante AP_ctx context che dovremmo assicurarci sia tipo 100. Il che implicherebbe 10 campionamenti.
 - 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 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. The result is that CaTrace 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.
 
----
-
-##### Ca2+TracesAccumulationLow: ( active: 10x ) accumulator
 ```Gen
-Ca2+TracesAccumulationLow: ( active: 10x )
-  type: accumulator
-  contained_by: PRESYNAPSE-BEH
+Ca2+TracesAccuLow
 
   in_context: AP_ctx
     hypothesis: (Ca2+ emptiness)
@@ -141,11 +145,10 @@ Ca2+TracesAccumulationLow: ( active: 10x )
       trace: None
 ```
 
-##### Ca2+TracesAccumulationMedium: ( active: 6x ) accumulator
+##### Ca2+TracesAccMedium
+
 ```Gen
-Ca2+TracesAccumulationMedium: ( active: 6x ) # medium
-  type: accumulator
-  contained_by: PRESYNAPSE-BEH
+Ca2+TracesAccMedium
 
   in_context: AP_ctx
     hypothesis: (Ca2+ mediumness)
@@ -153,11 +156,10 @@ Ca2+TracesAccumulationMedium: ( active: 6x ) # medium
       trace: None
 ```
 
-##### Ca2+TracesAccumulationHigh: ( active: 10x ) accumulator
+##### Ca2+TracesAccHigh
+
 ```Gen
-Ca2+TracesAccumulationHigh: ( active: 10x ) # high
-  type: accumulator
-  contained_by: PRESYNAPSE-BEH
+Ca2+TracesAccumulationHigh
 
   in_context: AP_ctx
     hypothesis: (Ca2+ fullness)
@@ -165,7 +167,7 @@ Ca2+TracesAccumulationHigh: ( active: 10x ) # high
       trace: None
 ```
 
-#### NOT AP_ctx
+#### NOT &AP
 
 ##### eCB clearance: accumulator
 
@@ -174,6 +176,7 @@ 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.
 
 ##### eCBClearance: ( active: 24x ) accumulator
+
 ```Gen
 eCBClearance: ( active: 24x ) # Slow
   type: accumulator
@@ -299,6 +302,7 @@ Ca2+TracesClearance: ( active: 30x ) # Slow
 ```
 
 ### VGCC-PRE-TUN: Container
+
 ```Gen
 
 VGCC-PRE-TUN
@@ -323,7 +327,9 @@ VGCC-PRE-TUN
 #### TunPossible_ctx
 
 ##### CheckVgccPreTun: ( active: 60x ) contexting
+
 Qui controlliamo che ci siano le condizioni per aumentare o diminuire la quantita' di VGCC
+
 ```Gen
 CheckVgccPreTun: ( active: 60x )
   type: contexting
@@ -338,6 +344,7 @@ CheckVgccPreTun: ( active: 60x )
 ```
 
 ##### PossibleUpPreVgccTun: ( active: 10x ) accumulator
+
 ```Gen
 PossibleUpPreVgccTun: ( active: 10x )
   type: accumulator
@@ -350,6 +357,7 @@ PossibleUpPreVgccTun: ( active: 10x )
 ```
 
 ##### PossibleDownPreVgccTun: ( active: 10x ) accumulator
+
 ```Gen
 PossibleDownPreVgccTun: ( active: 10x )
   type: accumulator
@@ -414,6 +422,7 @@ Qui semplifichiamo:
 Devo controllare che le condizioni sotto siano esaustive. Qui ho confuso high con low, e inoltre ho messo NT per mGluR che devo controllare che abbia senso.
 
 ##### Ca2+enterLow: ( active: 12x ) accumulator
+
 ```Gen
 Ca2+enterLow: ( active: 12x ) # Low
   type: accumulator
@@ -426,6 +435,7 @@ Ca2+enterLow: ( active: 12x ) # Low
 ```
 
 ##### Ca2+enterMedium: ( active: 6x ) accumulator
+
 ```Gen
 Ca2+enterMedium: ( active: 6x ) # Medium
   type: accumulator
@@ -440,6 +450,7 @@ Ca2+enterMedium: ( active: 6x ) # Medium
 ```
 
 ##### Ca2+enterHigh: ( active: 3x ) accumulator
+
 ```Gen
 Ca2+enterHigh: ( active: 3x ) # High
   type: accumulator
@@ -457,16 +468,19 @@ Ca2+enterHigh: ( active: 3x ) # High
 Qui eliminiamo Ca2+. Il tempo che ci mette ad eliminare il Ca2+ dovrebbe essere minoe dell'inervallo fra un AP_ctx e un'altra. Siccome non comprendiamo per ora ATP, non c'e' accumulo di Ca2+ per mancanza di ATP (stanchezza).
 
 Non non comprendiamo anche il ristabilimento del Voltage, con altri Ioni entranti e uscenti, per ora tutto dipende da AP del SOMA. Non comprendiamo per ora:
+
 - PMCA: primary, ATP-dependent
 - NCX: fast, NOT ATP-dependent
 - SERCA: slowest, ATP-dependent
 
 Qui disinguiamo:
+
 - Ca+2 fullness che si puo' verificare alla fine di un AP
 - NOT ca2+ fullness che svuota piu' lentamente
 - da capire se serve veramente questa distinzione per il tempo di svuotamento.
 
 ##### Ca2+ClearanceLow: ( active: 24x ) accumulator
+
 ```Gen
 Ca2+ClearanceLow: ( active: 24x ) # Low
   type: accumulator
@@ -479,6 +493,7 @@ Ca2+ClearanceLow: ( active: 24x ) # Low
 ```
 
 ##### Ca2+ClearanceHigh: ( active: 4x ) accumulator
+
 ```Gen
 Ca2+ClearanceHigh: ( active: 4x ) # High
   type: accumulator
diff --git a/organs/tectum/tectum.md b/organs/tectum/tectum.md
index d5d3658..1ff17ef 100644
--- a/organs/tectum/tectum.md
+++ b/organs/tectum/tectum.md
@@ -14,7 +14,7 @@ TECTUM
     ../../modules/winnertakeall.md
     ../../elements/astrocyte.md 
 
-  expansion:
+  expand_comprehension:
 
     # Modules
     @WTA-001: WINNERTAKEALL []
@@ -24,6 +24,10 @@ TECTUM
     @AST-001: ASTROCYTE []
     @AST-002: ASTROCYTE []
 
+    @: bind [@WTA-001, @AST-001]
+
+  istantiate_container:
+
     # Qui l'interprete deve controllare che due o piu' "in" non sono ammessi, perche' potrebbero riguardare ASTROCYTE diversi. Da capore come fare il controllo.
 
     # external intrication
@@ -32,10 +36,7 @@ TECTUM
     @: IN-EXCITATION [in: @WTA-003.@OUT-EXCI-001]
 
     # interanl intrication
-    
+
     @: EXCITATION [out: @WTA-001.@OUT-EXCI-001, in: @WTA-003.@IN-EXCI-002]
     @: INHIBITION [out: @WTA-002.@OUT-INHI-001, in: @WTA-003.@IN-INHI-004]
-
-  bind: [@WTA-001, @AST-001]
-
-```
\ No newline at end of file
+```