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Merge branch 'master' of https://repo.splindex.net/ocrampal/organism

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2026-06-04 10:14:13 +02:00
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@@ -19,7 +19,30 @@ SOMA
_@SOMA_VGSC-M: TUB [ comprehension: SOMA_VGSC, full: 50x, active: 20x, empty: 10x ] _@SOMA_VGSC-M: TUB [ comprehension: SOMA_VGSC, full: 50x, active: 20x, empty: 10x ]
_@SOMA_VGSC-L: TUB [ comprehension: SOMA_VGSC, full: 50x, active: 20x, empty: 10x ] _@SOMA_VGSC-L: TUB [ comprehension: SOMA_VGSC, full: 50x, active: 20x, empty: 10x ]
instantiation: intrication:
# Scope
!DAY: INTRICATION [ ref: &ORGANISM.!DAY ]
!NIGHT: INTRICATION [ ref: &ORGANISM.!NIGHT ]
# Tub
_SpikeTrainTraces: INTRICATION [ ref: &NEURON._SpikeTrainTraces ]
instantiation:
# Context
*AP: CONTEXT []
*bAP: CONTEXT []
*VDBMax: CONTEXT []
*VDBMedium: CONTEXT []
*VDBLow: CONTEXT []
*NaSpill: CONTEXT []
# Tub
_VDB: TUB [ full: 60x, active: 30x, empty: 0x ]
_Na: TUB [ full: 60x, active: 30x, empty: 0x ]
_Ca2: TUB [ full: 60x, active: 30x, empty: 0x ]
_SomaRefractory: TUB [ full: 60x, active: 30x, empty: 0x ]
# Behaviour # Behaviour
$: BEHAVIOUR [ behaviour: MAIN-SOMA ] $: BEHAVIOUR [ behaviour: MAIN-SOMA ]
@@ -30,34 +53,30 @@ SOMA
``` ```
**Tubs:** **Tubs:**
- **_VDB**: dendrites deliver current
- **VDB**: dendrites deliver current - **_Na**: are a proxy for the Coulombs of charge building up on the somatic membrane. They are used to check threshold, but also to mimic Na+ and K+ pumping
- **_Ca2**: Medium term traces to guide tuning and Night development. It is a local trace, ATP is a global (Astrocyte)
- **Na**: are a proxy for the Coulombs of charge building up on the somatic membrane. They are used to check threshold, but also to mimic Na+ and K+ pumping - **_SpikeTrainTraces**: sono le tracce che consentono al neurone di far partire il Tuning neuronale, quando e' lontano da uno spike-train, ovvero e' in riposo.
- **_SomaRefractory**: tracce di refractory
- **Ca2+**: Medium term traces to guide tuning and Night development. It is a local trace, ATP is a global (Astrocyte)
- **SpikeTrainTraces**: sono le tracce che consentono al neurone di far partire il Tuning neuronale, quando e' lontano da uno spike-train, ovvero e' in riposo.
- **SomaRefractory**: tracce di refractory
### MAIN-SOMA: Container ### MAIN-SOMA: Container
```Gen ```Gen
MAIN-SOMA MAIN-SOMA
type: container type: behaviour
activity_scope: !DAY
tub_local: within_scope: !DAY
- VDB
- Na snippet:
- Ca2+ # *Fixed
- SomaRefractory @: CONTEXTOR [ snippet: SomaSpike, rf: active 30x ]
@: ACCUMULATOR [ snippet: SomaRefractorySpill, rf: active 16x ]
tub_intricated: @: ACCUMULATOR [ snippet: NASpill, rf: active 20x ]
- SpikeTrainTraces ( contained_in: DAY-N ) # *AP
@: ACCUMULATOR [ snippet: ActiveAP, rf: active 8x ]
@: ACCUMULATOR [ snippet: ActiveAP, rf: active 8x ]
``` ```
#### any #### *Fixed
##### SOMA-Status: ( active: 60x ) contextor ##### SOMA-Status: ( active: 60x ) contextor
@@ -66,22 +85,21 @@ As dendrites deliver current (VDB​), the soma acts like a capacitor. It "store
This only applies if not ApCtx, or in other words, SOMA is not in refractory period. This only applies if not ApCtx, or in other words, SOMA is not in refractory period.
```Gen ```Gen
SOMA-Status: ( active: 60x ) SOMA-Status:
type: contextor type: contextor
contained_by: MAIN-SOMA
in_context: any in_context: any
condition: ( VDB fullness ) AND NOT AP_ctx condition: _VDB fullness AND NOT AP_ctx
out_context: VDBMax_Ctx out_context: *VDBMax
condition: ( VDB mediumness ) AND NOT AP_ctx condition: ( VDB mediumness ) AND NOT AP_ctx
out_context: VDBMedium_ctx out_context: *VDBMedium
condition: ( VDB emptiness ) AND NOT Ap_ctx condition: _VDB emptiness AND NOT _Ap
out_context: VDBLow_ctx out_context: *VDBLow
condition: NOT ( Na empty ) condition: NOT _Na empty
out_context: NaSpill_ctx out_context: *NaSpill
``` ```
##### SomaSpike: ( active: 30x ) contextor ##### SomaSpike
Il fatto che mettiamo il check di AP separato dal check del Soma-Status, e' perche' vogliamo poter avere un RF specifico per AP, eventualmente tunabile. Il fatto che mettiamo il check di AP separato dal check del Soma-Status, e' perche' vogliamo poter avere un RF specifico per AP, eventualmente tunabile.
@@ -90,76 +108,67 @@ Qui siamo nella fase effettiva di spike, non refractory che viene dopo. Fa da co
La fullness di Na rappresenta il threshold e puo' essere modificato. La fullness di SomaRefractory rappresenta la lunghezza del refractory. La fullness di Na rappresenta il threshold e puo' essere modificato. La fullness di SomaRefractory rappresenta la lunghezza del refractory.
```Gen ```Gen
SomaSpike: ( active: 30x ) SomaSpike
type: contextor type: contextor
contained_by: MAIN-SOMA
in_context: any in_context: *Fixed
condition: ( Na fullness ) AND ( SomaRefractory emptiness ) condition: _Na fullness AND _SomaRefractory emptiness
out_context: AP_ctx out_context: *AP
out_context: bAp_ctx out_context: *bAp
``` ```
#### SomaRefractorySpill: ( active: 16x ) accumulator ##### SomaRefractorySpill
Lo spill deve essere piu' lento dell'increase che avviene in ActiveAP Lo spill deve essere piu' lento dell'increase che avviene in ActiveAP
```Gen ```Gen
SomaRefractorySpill: ( active: 16x ) SomaRefractorySpill
type: accumulator type: accumulator
contained_by: MAIN-SOMA
in_context: any in_context: *Fixed
hypothesis: NOT ( SomaRefractory empty ) hypothesis: NOT _SomaRefractory empty
action: [ decrease SomaRefractory ] action: [ decrease _SomaRefractory ]
trace: trace:
``` ```
#### Ap_ctx ##### NaSpill
##### ActiveAP: ( active: 8x ) accumulator ```Gen
NaSpill
type: accumulator
in_context: *Fixed
hypothesis: NOT _Na empty
action: [ decrease _Na ]
trace:
```
#### *Ap
##### ActiveAP
Durante la fase effettiva di spike: Durante la fase effettiva di spike:
- eliminiamo Na accumulati. Qui ad un RF molto maggiore che con NaSpill. In teoria qui dovremmo eliminare tutti gli Na e NaSpill potrebbe non servire. - eliminiamo Na accumulati. Qui ad un RF molto maggiore che con NaSpill. In teoria qui dovremmo eliminare tutti gli Na e NaSpill potrebbe non servire.
- riempiamo SomaRefractory per fase di refractory - riempiamo SomaRefractory per fase di refractory
- riempiamo Ca2+ per le tracce medio termine di potenziamento/depotenziamento. - riempiamo _Ca2 per le tracce medio termine di potenziamento/depotenziamento.
```Gen ```Gen
ActiveAP: ( active: 8x ) ActiveAP
type: accumulator type: accumulator
contained_by: MAIN-SOMA
in_context: Ap_ctx in_context: *AP
hypothesis: NOT Na empty hypothesis: NOT _Na empty
action: [ decrease Na ] action: [ decrease _Na ] ## This is addition to the _NASpill
trace: trace:
hypothesis: NOT _SomaRefractory full
hypothesis: NOT SomaRefractory full
action: [ increase SomaRefractory ] action: [ increase SomaRefractory ]
trace: trace:
hypothesis: NOT _Ca2 full
hypothesis: NOT Ca2+ full action: [ increase _Ca2 ]
action: [ increase Ca2+ ]
trace: trace:
``` ```
#### NaSpill_ctx
##### NaSpill: ( active: 8x ) accumulator
Questo potrebbe non servire se eliminiamo tutti Na durante ActiveAP.
```Gen
NaSpill: ( active: 8x )
type: accumulator
contained_by: MAIN-SOMA
in_context: NaSpill_ctx
hypothesis: NOT ( Na emptiness )
action: [ decrease Na ]
trace:
```
## SOMA_VGSC: Comprehension ## SOMA_VGSC: Comprehension