syntax presynapse

neuron/axon.md

@@ -90,18 +90,17 @@ container: PRESYNAPSE
     - CaTraces ( full: 50x, active: 0x, empty: 0x )
 
   tub_intricated:
-    - NT # SYN
-    - ATP? # 
-    - eCB # from POST
+    - NT ( contained_by: SYN ) 
+    - ATP ( contained_by: ? ) 
+    - eCB ( contained_by: POST ) 
 
   context_intricated:
-  - AP ( contained_by: BEH-SOMA ) 
-
+  - AP ( contained_by: SOMA ) 
 ```
 
 ### ms: behaviors
 
-#### AP-RRPConcentration: Context
+#### AP-RRPConcentration: check_tpc
 
 Il rilascio di NT lo facciamo nel contesto di AP. Biologicamente dovrebbe avvenire solo in base alle concentrazioni, quindi anche al difuori degli AP.
 
@@ -110,7 +109,7 @@ RF deve essere MOLTO piu' basso della durata di un AP. In maniera da essere atti
 Questo poi per permettere la diversa contestualizzazione degli episodi di NTrelease, a piu' o meno alta velocita'.
 
 ```Gen
-context: AP-RRPConcentration
+check_tpc: AP-RRPConcentration
   contained_by: PRESYNAPSE
 
   in_context: AP
@@ -123,12 +122,12 @@ context: AP-RRPConcentration
     out_context: RRPFull
 ```
 
-#### AP-Ca2+Concentration: Context
+#### AP-Ca2+Concentration: check_tpc
 
 Qui controlliamo la concentrazione nel contesto di un AP.
 
 ```Gen
-context: AP-Ca2+Concentration
+check_tpc: AP-Ca2+Concentration
   contained_by: PRESYNAPSE
 
   in_context: AP
@@ -149,12 +148,12 @@ Ci sono 4 casi che dipendono da RRP, Ca2+ e NT. L'idea e' che la quantita' di RR
 
 ![nt-release.png](.attachments/nt-release.png)
 
-##### NTreleaseMaximum: Episode
+##### NTreleaseMaximum: interacting
 
 NT empty
 
 ```Gen
-episode: NTreleaseMaximum
+interacting: NTreleaseMaximum
   contained_by: PRESYNAPSE
 
   in_context: (Ca2+Full AND RRPFull)
@@ -165,12 +164,12 @@ episode: NTreleaseMaximum
     trace: None
 ```
 
-##### NTreleaseHigh: Episode
+##### NTreleaseHigh: interacting
 
 Solo in questo caso NT modera! NT NOT empty
 
 ```Gen
-episode: NTreleaseHigh
+interacting: NTreleaseHigh
   contained_by: PRESYNAPSE
 
   in_context: (Ca2+Full AND RRPFull)
@@ -181,12 +180,12 @@ episode: NTreleaseHigh
     trace: None
 ```
 
-##### NTreleaseMediumness: Episode
+##### NTreleaseMediumness: interacting
 
 In tutti i casi di NT
 
 ```Gen
-episode: NTreleaseMediumness
+interacting: NTreleaseMediumness
   contained_by: PRESYNAPSE
 
   in_context: (Ca2+Full AND RRPMediumness) OR (Ca2+Mediumness AND RRPFull)
@@ -197,12 +196,12 @@ episode: NTreleaseMediumness
     trace: None
 ```
 
-##### NTreleaseLow: Episode
+##### NTreleaseLow: interacting
 
 In tutti i casi di NT
 
 ```Gen
-episode: NTreleaseLow
+interacting: NTreleaseLow
   contained_by: PRESYNAPSE
 
   in_context: (Ca2+Mediumness AND RRPMediumness)
@@ -225,10 +224,10 @@ Quindi non comprendiamo anche il ristabilimento del Voltage, con altri Ioni entr
 
 Abbiamo il caso di clearance nel contesto di un AP e non nel contesto di AP, per eliminare il Ca2+ fra le spike.
 
-##### AP-CaClearanceHigh: Episode
+##### AP-CaClearanceHigh: interacting
 
 ```Gen
-episode: AP-CaClearanceHigh
+interacting: AP-CaClearanceHigh
   contained_by: PRESYNAPSE
 
   in_context: Ca2+Full
@@ -239,10 +238,10 @@ episode: AP-CaClearanceHigh
     trace: None
 ```
 
-##### AP-CaClearanceMediumness: Episode
+##### AP-CaClearanceMediumness: interacting
 
 ```Gen
-episode: AP-CaClearanceMediumness
+interacting: AP-CaClearanceMediumness
   contained_by: PRESYNAPSE
 
   in_context: Ca2+Mediumness
@@ -253,10 +252,10 @@ episode: AP-CaClearanceMediumness
     trace: None
 ```
 
-##### NotAP-CaClearance: Episode
+##### NotAP-CaClearance: interacting
 
 ```Gen
-episode: NotAP-CaClearance
+interacting: NotAP-CaClearance
   contained_by: PRESYNAPSE
 
   in_context: NOT AP
@@ -275,10 +274,10 @@ So after one second of silence CaTrace has fallen to ~37% of its peak value, aft
 
 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
+##### CaTracesAccumulationFast: interacting
 
 ```Gen
-episode: CaTracesAccumulationFast
+interacting: CaTracesAccumulationFast
   contained_by: PRESYNAPSE
 
   in_context: Ca2+Full
@@ -289,10 +288,10 @@ episode: CaTracesAccumulationFast
     trace: None
 ```
 
-##### CaTracesAccumulationSlow: Episode
+##### CaTracesAccumulationSlow: interacting
 
 ```Gen
-episode: CaTracesAccumulationSlow
+interacting: CaTracesAccumulationSlow
   contained_by: PRESYNAPSE
 
   in_context: Ca2+Full
@@ -305,12 +304,12 @@ episode: CaTracesAccumulationSlow
 
 ### sec: behaviors
 
-#### CheckConditionsPreSec: Context
+#### CheckConditionsPreSec: check_tpc
 
 Contestualizziamo in maniera Fixed ogni mezzo secondo?
 
 ```Gen
-context: CheckConditionsPreSec
+check_tpc: CheckConditionsPreSec
   contained_by: PRESYNAPSE
 
   in_context: Fixed
@@ -326,14 +325,14 @@ context: CheckConditionsPreSec
     out_context: eCBNotEmpty
 ```
 
-#### eCB clearance: Episode
+#### eCB clearance: interacting
 
 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
+interacting: eCBClearance
   contained_by: PRESYNAPSE
 
   in_context: eCBNotEmpty
@@ -344,12 +343,12 @@ episode: eCBClearance
     trace: None
 ```
 
-#### CaTraces clearance: Episode
+#### CaTraces clearance: interacting
 
 Qui non facciamo un flush di Catrace, riduciamo ogni mezzo secondo (context) di un RF di questo episodio.
 
 ```Gen
-episode: CaTracesClearance
+interacting: CaTracesClearance
   contained_by: PRESYNAPSE
 
   in_context: CaTracesNotEmpty
@@ -364,14 +363,14 @@ episode: CaTracesClearance
 
 This happens in the seconds loop, once per second.
 
-##### RPShuttleSlow: Episode
+##### RPShuttleSlow: interacting
 
 The "Hard Bottleneck" State. Recruitment is throttled by a lack of signal, a lack of supply, or a lack of space. If even one of these "Near-Stop" conditions is met, the rate cannot exceed "Slow," regardless of the other two conditions.
 
 Rate: 0.00 – 0.25
 
 ```Gen
-episode: RPShuttleSlow
+interacting: RPShuttleSlow
   contained_by: PRESYNAPSE
 
   in_context: RPShuttle
@@ -382,14 +381,14 @@ episode: RPShuttleSlow
     trace: None
 ```
 
-##### RPShuttleModerate: Episode
+##### RPShuttleModerate: interacting
 
 The "Sub-Optimal" State. The machinery is working, but it's held back by partial limitations. This covers cases where the signal is steady but the "piston" isn't firing at full speed, or where a high vacancy in the RRP (emptiness) forces a low signal to work a bit harder.
 
 Rate: 0.50 – 0.97
 
 ```Gen
-episode: RPShuttleModerate
+interacting: RPShuttleModerate
   contained_by: PRESYNAPSE
 
   in_context: RPShuttle
@@ -403,14 +402,14 @@ episode: RPShuttleModerate
     trace: None
 ```
 
-##### RPShuttleFast: Episode
+##### RPShuttleFast: interacting
 
 The "High Performance" State. Multiple systems are optimized, but one is still at a "mediumness" level. This represents an active synapse that hasn't reached its absolute peak because either the supply is only 50% or the RRP isn't empty enough to create that "maximal vacuum" pull.
 
 Rate: 1.25 – 1.94
 
 ```Gen
-episode: RPShuttleFast
+interacting: RPShuttleFast
   contained_by: PRESYNAPSE
 
   in_context: RPShuttle
@@ -423,14 +422,14 @@ episode: RPShuttleFast
     trace: None
 ```
 
-##### RPShuttleMaximal: Episode
+##### RPShuttleMaximal: interacting
 
 The "Total Recovery" State. All systems are at their theoretical peak for speed.
 
 Rate: 2.50 – 5.00
 
 ```Gen
-episode: RPShuttleMaximal
+interacting: RPShuttleMaximal
   contained_by: PRESYNAPSE
 
   in_context: RPShuttle
@@ -490,7 +489,7 @@ tuner: VGCC-PRE-TUN
 # la modulazione e' una pompa fra posMod e actMod e controlliamo
 # solo empty
 
- context_intricated:
+ check_tpc_intricated:
   - TunPossible ( contained_by: DAY-N )
 
  tub_local:
@@ -498,7 +497,7 @@ tuner: VGCC-PRE-TUN
  tub_intricated:
 ```
 
-##### Context
+##### check_tpc
 
 ```Gen
 context: Check
@@ -511,10 +510,10 @@ context: Check
   out_context: TunPreVcgg
 ```
 
-##### Episode
+##### interacting
 
 ```Gen
-episode: Tun
+interacting: Tun
   contained_by: VGCC-PRE-TUN
 
   in_context: TunPreVcgg
@@ -561,10 +560,10 @@ Qui sostituiamo:
 
 Devo controllare che le condizioni sotto siano esaustive.
 
-##### Ca2+enterOpen: Episode
+##### Ca2+enterOpen: interacting
 
 ```Gen
-episode: Ca2+enterOpen
+interacting: Ca2+enterOpen
   contained_by: VGCC-PRE
 
   in_context: AP
@@ -575,10 +574,10 @@ episode: Ca2+enterOpen
     trace: None
 ```
 
-##### Ca2+enterReduced-partial: Episode
+##### Ca2+enterReduced-partial: interacting
 
 ```Gen
-episode: Ca2+enterReduced-partial
+interacting: Ca2+enterReduced-partial
   contained_by: VGCC-PRE
 
   in_context: AP
@@ -589,10 +588,10 @@ episode: Ca2+enterReduced-partial
     trace: None
 ```
 
-##### Ca2+enterSuppressed: Episode
+##### Ca2+enterSuppressed: interacting
 
 ```Gen
-episode: Ca2+enterSupressed
+interacting: Ca2+enterSupressed
   contained_by: VGCC-PRE
 
   in_context: AP