Merge branch 'master' of https://repo.splindex.net/ocrampal/organism
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+82
-73
@@ -19,7 +19,30 @@ SOMA
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_@SOMA_VGSC-M: TUB [ comprehension: SOMA_VGSC, full: 50x, active: 20x, empty: 10x ]
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_@SOMA_VGSC-L: TUB [ comprehension: SOMA_VGSC, full: 50x, active: 20x, empty: 10x ]
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instantiation:
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intrication:
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# Scope
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!DAY: INTRICATION [ ref: &ORGANISM.!DAY ]
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!NIGHT: INTRICATION [ ref: &ORGANISM.!NIGHT ]
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# Tub
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_SpikeTrainTraces: INTRICATION [ ref: &NEURON._SpikeTrainTraces ]
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instantiation:
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# Context
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*AP: CONTEXT []
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*bAP: CONTEXT []
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*VDBMax: CONTEXT []
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*VDBMedium: CONTEXT []
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*VDBLow: CONTEXT []
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*NaSpill: CONTEXT []
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# Tub
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_VDB: TUB [ full: 60x, active: 30x, empty: 0x ]
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_Na: TUB [ full: 60x, active: 30x, empty: 0x ]
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_Ca2: TUB [ full: 60x, active: 30x, empty: 0x ]
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_SomaRefractory: TUB [ full: 60x, active: 30x, empty: 0x ]
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# Behaviour
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$: BEHAVIOUR [ behaviour: MAIN-SOMA ]
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@@ -30,34 +53,30 @@ SOMA
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```
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**Tubs:**
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- **VDB**: dendrites deliver current
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- **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
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- **Ca2+**: Medium term traces to guide tuning and Night development. It is a local trace, ATP is a global (Astrocyte)
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- **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.
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- **SomaRefractory**: tracce di refractory
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- **_VDB**: dendrites deliver current
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- **_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
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- **_Ca2**: Medium term traces to guide tuning and Night development. It is a local trace, ATP is a global (Astrocyte)
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- **_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.
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- **_SomaRefractory**: tracce di refractory
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### MAIN-SOMA: Container
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```Gen
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MAIN-SOMA
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type: container
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activity_scope: !DAY
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type: behaviour
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tub_local:
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- VDB
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- Na
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- Ca2+
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- SomaRefractory
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tub_intricated:
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- SpikeTrainTraces ( contained_in: DAY-N )
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within_scope: !DAY
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snippet:
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# *Fixed
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@: CONTEXTOR [ snippet: SomaSpike, rf: active 30x ]
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@: ACCUMULATOR [ snippet: SomaRefractorySpill, rf: active 16x ]
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@: ACCUMULATOR [ snippet: NASpill, rf: active 20x ]
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# *AP
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@: ACCUMULATOR [ snippet: ActiveAP, rf: active 8x ]
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@: ACCUMULATOR [ snippet: ActiveAP, rf: active 8x ]
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```
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#### any
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#### *Fixed
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##### SOMA-Status: ( active: 60x ) contextor
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@@ -66,22 +85,21 @@ As dendrites deliver current (VDB), the soma acts like a capacitor. It "store
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This only applies if not ApCtx, or in other words, SOMA is not in refractory period.
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```Gen
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SOMA-Status: ( active: 60x )
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SOMA-Status:
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type: contextor
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contained_by: MAIN-SOMA
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in_context: any
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condition: ( VDB fullness ) AND NOT AP_ctx
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out_context: VDBMax_Ctx
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condition: _VDB fullness AND NOT AP_ctx
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out_context: *VDBMax
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condition: ( VDB mediumness ) AND NOT AP_ctx
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out_context: VDBMedium_ctx
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condition: ( VDB emptiness ) AND NOT Ap_ctx
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out_context: VDBLow_ctx
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condition: NOT ( Na empty )
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out_context: NaSpill_ctx
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out_context: *VDBMedium
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condition: _VDB emptiness AND NOT _Ap
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out_context: *VDBLow
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condition: NOT _Na empty
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out_context: *NaSpill
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```
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##### SomaSpike: ( active: 30x ) contextor
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##### SomaSpike
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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.
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@@ -90,76 +108,67 @@ Qui siamo nella fase effettiva di spike, non refractory che viene dopo. Fa da co
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La fullness di Na rappresenta il threshold e puo' essere modificato. La fullness di SomaRefractory rappresenta la lunghezza del refractory.
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```Gen
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SomaSpike: ( active: 30x )
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SomaSpike
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type: contextor
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contained_by: MAIN-SOMA
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in_context: any
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condition: ( Na fullness ) AND ( SomaRefractory emptiness )
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out_context: AP_ctx
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out_context: bAp_ctx
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in_context: *Fixed
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condition: _Na fullness AND _SomaRefractory emptiness
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out_context: *AP
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out_context: *bAp
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```
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#### SomaRefractorySpill: ( active: 16x ) accumulator
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##### SomaRefractorySpill
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Lo spill deve essere piu' lento dell'increase che avviene in ActiveAP
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```Gen
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SomaRefractorySpill: ( active: 16x )
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SomaRefractorySpill
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type: accumulator
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contained_by: MAIN-SOMA
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in_context: any
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hypothesis: NOT ( SomaRefractory empty )
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action: [ decrease SomaRefractory ]
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in_context: *Fixed
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hypothesis: NOT _SomaRefractory empty
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action: [ decrease _SomaRefractory ]
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trace:
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```
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#### Ap_ctx
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##### NaSpill
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##### ActiveAP: ( active: 8x ) accumulator
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```Gen
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NaSpill
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type: accumulator
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in_context: *Fixed
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hypothesis: NOT _Na empty
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action: [ decrease _Na ]
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trace:
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```
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#### *Ap
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##### ActiveAP
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Durante la fase effettiva di spike:
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- 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.
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- riempiamo SomaRefractory per fase di refractory
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- riempiamo Ca2+ per le tracce medio termine di potenziamento/depotenziamento.
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- riempiamo _Ca2 per le tracce medio termine di potenziamento/depotenziamento.
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```Gen
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ActiveAP: ( active: 8x )
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ActiveAP
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type: accumulator
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contained_by: MAIN-SOMA
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in_context: Ap_ctx
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hypothesis: NOT Na empty
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action: [ decrease Na ]
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in_context: *AP
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hypothesis: NOT _Na empty
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action: [ decrease _Na ] ## This is addition to the _NASpill
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trace:
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hypothesis: NOT SomaRefractory full
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hypothesis: NOT _SomaRefractory full
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action: [ increase SomaRefractory ]
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trace:
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hypothesis: NOT Ca2+ full
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action: [ increase Ca2+ ]
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hypothesis: NOT _Ca2 full
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action: [ increase _Ca2 ]
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trace:
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```
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#### NaSpill_ctx
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##### NaSpill: ( active: 8x ) accumulator
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Questo potrebbe non servire se eliminiamo tutti Na durante ActiveAP.
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```Gen
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NaSpill: ( active: 8x )
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type: accumulator
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contained_by: MAIN-SOMA
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in_context: NaSpill_ctx
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hypothesis: NOT ( Na emptiness )
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action: [ decrease Na ]
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trace:
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```
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## SOMA_VGSC: Comprehension
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