pvlv

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README

PVLV: Primary Value, Learned Value

GoDoc

The PVLV model was ported from the model implemented in the C++ version of Emergent, and tries to faithfully reproduce the functionality of that model, as described in Mollick et al, 2020. This is the updated, bivalent version of PVLV, which has significant differences from the version created by the PVLV Wizard in C++ Emergent. Some portions of the code are very close to their C++ progenitors. At the same time, the Go version of the model follows the conventions of the new framework, so some aspects are quite different. The rewritten model's code should be on the whole more straightforward and easier to understand than the C++ version. That said, this is a very complex model, with a number of components that interact in ways that may not be immediately obvious.

Example/Textbook Application

A detailed description of the PVLV model from the standpoint of psychological phenomena can be found in the PVLV example application documentation. This document describes some parts of the implementation of that model.

Overall architecture of the example application

The entry point for the whole program is the main() function, in pvlv.go. Just above main() in the code is a global variable, TheSim, which contains the top-level state of the entire simulation. Strictly speaking, it's not necessary to keep rogram state in a global variable, but since Go programs tend to have a great deal of concurrency, it greatly simplifies debugging. The very simple main() function collects any command-line parameters, sets their values in TheSim, and starts the graphical user interface ("GUI") for the program. One of the command-line parameters that can be supplied is -nogui, which will run the simulation with no user interface, for running experiments in batch mode (Note: batch mode is currently not fully implemented -- it will run the program, but needs more hooks to allow an experimental setup to be loaded).

Command-line switches

See the command line options appendix of the PVLV textbook application documentation for a description of the available command-line switches.

The PVLV model uses the Stepper package to control running of the application.

PVLV Library

Network top level

PVLV extends leabra.Network to allow some extra

Layers
Inputs

PVLV has four types of inputs:

  • Primary value, unconditioned inputs (US/PV): These represent stimuli that have inherent appetitive or aversive value, such as food, water, mating, electric shock, sharp edges, or nausea.
  • Neutral-valued, conditioned inputs (CS/LV): These represent neutral stimuli such as bells or lights.
  • Context inputs: These inputs are proxies for the environmental conditions associated with different CSs. These inputs provide a specific input, rather than absence of input, which is critical for extinction. In one dimension these inputs are in 1-to-1 correspondence with the set of CSs, while in the other dimension they correspond to time steps within a trial.
  • USTime inputs: These inputs encode information about the upcoming occurrence of specific USs to ventral striatum patch compartment layers.

All inputs use localist representations.

Amygdala

The model has a total of 10 different amygdala layers, with three main divisions:

  • Centrolateral amygdala (CEl): Two localist units for each US, one for acquisition, one for extinction.
  • Centromedial amygdala (CEm): One localist unit corresponding to each US.
  • Basolateral amygdala (BLA): Two groups of units corresponding to each US, one group for acquisition, one for extinction. This is the only portion of the model that uses distributed representations.
Ventral striatum

There are a total of 32 localist units representing the VS:

  • 1 unit for each of 8 USs, times:
  • D1 vs. D2 dopamine receptors, times:
  • patch (striosome) vs. matrix compartments
Other layers
  • Ventral Tegmental Area (VTA): Two single-unit nuclei, one each for appetitive and aversive stimuli.
  • Lateral Habenula / Rostromedial Tegmental Nucleus (LHbRMTg): One unit, with inhibitory connections to both sides of the VTA.
  • Pedunculopontine Tegmentum (PPTg): A single unit that relays a positively-rectified version of CEm output to the VTA
Connectivity
  • US inputs project directly to the acquisition portions of CEl, and to the appetitive D1-expressing and aversive D2-expressing portions of the BLA. US inputs are topographically ordered, with fixed weights.
  • CS inputs project to these same portions of CEl and BLA, but with weak, diffuse connectivity that is highly plastic. In addition, CS inputs project to the matrix portion of VS, with weak connections whose strength is altered by learning.
  • ContextIn units project primarily to portions of the model concerned with extinction.
  • USTime inputs project only to the patch portions of VS.
Modulation

For implementing modulation, sending layers implement ModSender, a simple interface with two methods, SendMods and ModSendValue. The implementation of SendMods calculates modulation values by summing subpool activation levels and storing the results in ModSent, then calling ReceiveMods on the layers in ModReceivers. Receivers implement the ModReceiver interface. ReceiveMods calls ModSendValue to get raw values, multiplies those by a scale factor stored in the Scale field of the receiver's ModRcvrParams, and stores the result in ModNet. ModsFmInc, the second method in the ModReceiver interface, is called later from the top-level network loop.

Modulatory projections do not convey activation directly, but act as a multiplier on activation from other excitatory inputs (with one exception, described below). In ModsFmInc, the value of ModNet is used to set ModLevel and ModLrn in the receiving layer. If ModNet is less than ModNetThreshold, ModLrn is set to 0, which completely shuts down weight changes on the receiver, while ModLevel is set to either 0 or 1 based on the ActModZero parameter on the receiving layer.

Activation in modulated layers is calculated by a customized version of ActFmG, which adjusts activation based on the value of ModLevel. The value of nrn.Act is copied into ModAct, which is altered based on DA activation. If a layer receives direct PV/US activation and PV activation is above threshold, ModAct is overridden by copying PV activation directly to ModAct. ModAct is used rather than Act in calculating weight changes.

ModLevel is implemented by a numeric value, but in the current implementation essentially acts as an all-or-nothing gate. A value of 1 in ModLevel allows full activation (i.e., no modulation), while a value of 0 completely shuts down activation on the receiving side.

Learning in PVLV is basically Hebbian. Weight changes are calculated in Q3, multiplying the activation level of the sending layer by the difference between the value of ModAct and the Q0 value of neuron activation, possibly suppressed by a zero value of ModLrn, whose calculation is described above (basically zero if ModNet is less than 0.1, otherwise 1). Learning is further modulated by the DA activation level. DA activation for learning is set to zero if it is less than the value of DALrnThr for the projection, further modified by DALRBase and DALRGain. Note that a zero value for DA activation will completely shut down learning, unless DALRBase is nonzero.

VS matrix layers use a delayed activity trace, similar to that described in the PBWM documentation. At each learning cycle, a raw value is calculated from the change in receiving neuron activation between Q3 qnd Q0, times sending layer activation, but rather than using this value directly, it is stored in a "trace", and the previous cycle's trace value determines weight changes. The model has provisions for keeping a decaying trace value and adding that into the value for the current cycle, but at present the decay function is essentially disabled, with a "decay" value set to 1.

Summary

  • The ModLayer interface, which has a single method, AsMod, is used to access modulation-specific fields for layers that send or receive modulatory connections.

  • The ModSender interface is used by layers that send modulation to other layers. It has two methods:

    • SendMods(ltime *leabra.Time) is called from the top-level Network loop. It puts the sum of activity for all neurons in each subpool in the sending layer into the ModSent field, then calls ModReceiver.ReceiveMods on all layers in its ModReceivers field.

    • ModSendValue(ni int32) float32 is called from receiving layers, and takes the index of a layer subpool in a sending layer and returns the modulation value calculated in SendMods.

  • The ModReceiver interface is implemented by layers that receive modulatory inputs. It has two methods:

    • ReceiveMods(sender ModSender, scale float32) is called by sending layers. Its implementation should call ModSendValue, described above, to get the value of modulatory input for one subpool in a sending layer and copy that value, times the specified scale, into the ModNet field of each neuron in the receiving layer.

    • ModsFmInc(_, *leabra.Time) is called from the top-level simulation loop on each receiving layer, and uses the modulation value in ModNet to calculate layer-specific effects on learning rate and activity.

  • There are two main classes of modulation receivers: amygdala layers, and medium spiny neurons. In most cases, a zero value for ModNet will completely shut off learning.

    • Within amygdala layers, modulatory input can in some cases shut down learning entirely, or can multiplicatively regulate learning rate.

    • Within striatal patch layers, the effect of modulatory inputs is similar to that for amygdala layers.

    • Within striatal matrix layers, learning is based on a "trace", using activity from the previous cycle to determine learning rate. However, in the absence of any dopaminergic signal on a particular cycle, no learning will occur.

References

  • Mollick, J. A., Hazy, T. E., Krueger, K. A., Nair, A., Mackie, P., Herd, S. A., & O’Reilly, R. C. (2020). A systems-neuroscience model of phasic dopamine. Psychological Review, Advance online publication. https://doi.org/10.1037/rev0000199

Documentation

Index

Constants

View Source 
const NoUSTimeIn = 320

Variables

View Source 
var (
	TraceVars       = []string{"NTr", "Tr"}
	SynapseVarProps = map[string]string{
		"NTr": `auto-scale:"+"`,
		"Tr":  `auto-scale:"+"`,
	}
	TraceVarsMap   map[string]int
	SynapseVarsAll []string
)
View Source 
var (
	// ModNeuronVars are the modulator neurons plus some custom variables that sub-types use for their
	// algo-specific cases -- need a consistent set of overall network-level vars for display / generic
	// interface.
	ModNeuronVars = []string{
		DA.String(), ACh.String(), SE.String(),
		ModAct.String(), ModLevel.String(), ModNet.String(), ModLrn.String(),
		PVAct.String(),
	}
	ModNeuronVarsMap map[string]int
	ModNeuronVarsAll []string
)
View Source 
var ContextInShape = []int{20, 3}

Context

View Source 
var CtxMap = map[string]Context{
	CtxA.String():    CtxA,
	CtxA_B.String():  CtxA_B,
	CtxA_C.String():  CtxA_C,
	CtxB.String():    CtxB,
	CtxB_B.String():  CtxB_B,
	CtxB_C.String():  CtxB_C,
	CtxC.String():    CtxC,
	CtxC_B.String():  CtxC_B,
	CtxC_C.String():  CtxC_C,
	CtxD.String():    CtxD,
	CtxD_B.String():  CtxD_B,
	CtxD_C.String():  CtxD_C,
	CtxE.String():    CtxE,
	CtxE_B.String():  CtxE_B,
	CtxE_C.String():  CtxE_C,
	CtxF.String():    CtxF,
	CtxF_B.String():  CtxF_B,
	CtxF_C.String():  CtxF_C,
	CtxU.String():    CtxU,
	CtxU_B.String():  CtxU_B,
	CtxU_C.String():  CtxU_C,
	CtxV.String():    CtxV,
	CtxV_B.String():  CtxV_B,
	CtxV_C.String():  CtxV_C,
	CtxW.String():    CtxW,
	CtxW_B.String():  CtxW_B,
	CtxW_C.String():  CtxW_C,
	CtxX.String():    CtxX,
	CtxX_B.String():  CtxX_B,
	CtxX_C.String():  CtxX_C,
	CtxY.String():    CtxY,
	CtxY_B.String():  CtxY_B,
	CtxY_C.String():  CtxY_C,
	CtxZ.String():    CtxZ,
	CtxZ_B.String():  CtxZ_B,
	CtxZ_C.String():  CtxZ_C,
	CtxAX.String():   CtxAX,
	CtxAX_B.String(): CtxAX_B,
	CtxAX_C.String(): CtxAX_C,
	CtxAB.String():   CtxAB,
	CtxAB_B.String(): CtxAB_B,
	CtxAB_C.String(): CtxAB_C,
	CtxBY.String():   CtxBY,
	CtxBY_B.String(): CtxBY_B,
	CtxBY_C.String(): CtxBY_C,
	CtxCD.String():   CtxCD,
	CtxCD_B.String(): CtxCD_B,
	CtxCD_C.String(): CtxCD_C,
	CtxCX.String():   CtxCX,
	CtxCX_B.String(): CtxCX_B,
	CtxCX_C.String(): CtxCX_C,
	CtxCY.String():   CtxCY,
	CtxCY_B.String(): CtxCY_B,
	CtxCY_C.String(): CtxCY_C,
	CtxCZ.String():   CtxCZ,
	CtxCZ_B.String(): CtxCZ_B,
	CtxCZ_C.String(): CtxCZ_C,
	CtxDU.String():   CtxDU,
}
View Source 
var CtxRe, _ = regexp.Compile("([ABCDEFUVWXYZ])([ABCDEFUVWXYZ]?)_?([ABCDEFUVWXYZ]?)")

var StimRe, _ = regexp.Compile("([ABCDEFUVWXYZ])([ABCDEFUVWXYZ]?)_(Rf|NR)")

View Source 
var KiT_AcqExt = kit.Enums.AddEnum(NAcqExt, kit.NotBitFlag, nil)
View Source 
var KiT_BlAmygLayer = kit.Types.AddType(&BlAmygLayer{}, nil)
View Source 
var KiT_CElAmygLayer = kit.Types.AddType(&CElAmygLayer{}, nil)
View Source 
var KiT_Context = kit.Enums.AddEnum(NContexts+1, kit.NotBitFlag, nil)
View Source 
var KiT_DALrnRule = kit.Enums.AddEnum(DALrnRuleN, kit.NotBitFlag, nil)
View Source 
var KiT_DaRType = kit.Enums.AddEnum(DaRTypeN, kit.NotBitFlag, nil)
View Source 
var KiT_LHbRMTgLayer = kit.Types.AddType(&LHbRMTgLayer{}, leabra.LayerProps)
View Source 
var KiT_MSNLayer = kit.Types.AddType(&MSNLayer{}, leabra.LayerProps)
View Source 
var KiT_ModLayer = kit.Types.AddType(&ModLayer{}, nil)
View Source 
var KiT_ModNeuron = kit.Types.AddType(&ModNeuron{}, nil)
View Source 
var KiT_ModNeuronVar = kit.Enums.AddEnum(ModNeuronVarsN, kit.NotBitFlag, nil)
View Source 
var KiT_ModParams = kit.Types.AddType(&ModParams{}, nil)
View Source 
var KiT_Modulators = kit.Types.AddType(&Modulators{}, nil)
View Source 
var KiT_Network = kit.Types.AddType(&Network{}, NetworkProps)
View Source 
var KiT_PPTgLayer = kit.Types.AddType(&PPTgLayer{}, leabra.LayerProps)
View Source 
var KiT_Stim = kit.Enums.AddEnum(StimN+1, kit.NotBitFlag, nil)
View Source 
var KiT_StriatalCompartment = kit.Enums.AddEnum(NSComp, kit.NotBitFlag, nil)
View Source 
var KiT_Tick = kit.Enums.AddEnum(TickN+1, kit.NotBitFlag, nil)
View Source 
var KiT_Valence = kit.Enums.AddEnum(ValenceN, kit.NotBitFlag, nil)
View Source 
var NegSMap = map[string]NegUS{
	Shock.String():    Shock,
	Nausea.String():   Nausea,
	Sharp.String():    Sharp,
	OtherNeg.String(): OtherNeg,
}
View Source 
var NetworkProps = leabra.NetworkProps
View Source 
var PosSMap = map[string]PosUS{
	Water.String():    Water,
	Food.String():     Food,
	Mate.String():     Mate,
	OtherPos.String(): OtherPos,
}
View Source 
var StimInShape = []int{12, 1}

Stim : conditioned stimuli

View Source 
var StimMap = map[string]Stim{
	StmA.String():    StmA,
	StmB.String():    StmB,
	StmC.String():    StmC,
	StmD.String():    StmD,
	StmE.String():    StmE,
	StmF.String():    StmF,
	StmU.String():    StmU,
	StmV.String():    StmV,
	StmW.String():    StmW,
	StmX.String():    StmX,
	StmY.String():    StmY,
	StmZ.String():    StmZ,
	StmNone.String(): StmNone,
	"":               StmNone,
}
View Source 
var StmGrpMap = map[Stim]int{
	StmNone: 0,
	StmA:    1,
	StmB:    2,
	StmC:    3,
	StmD:    1,
	StmE:    2,
	StmF:    3,
	StmX:    4,
	StmU:    4,
	StmY:    5,
	StmV:    5,
	StmZ:    6,
	StmW:    7,
}
View Source 
var TickMap = map[string]Tick{
	T0.String():      T0,
	T1.String():      T1,
	T2.String():      T2,
	T3.String():      T3,
	T4.String():      T4,
	T5.String():      T5,
	T6.String():      T6,
	T7.String():      T7,
	T8.String():      T8,
	T9.String():      T9,
	TckNone.String(): TckNone,
}
View Source 
var USInShape = []int{4}
View Source 
var USNone = US(PosUSNone)
View Source 
var USTRe, _ = regexp.Compile("([ABCDEFUVWXYZ]?)_?(Pos|Neg)US([0123])_t([01234])")
View Source 
var USTimeInShape = []int{16, 2, 4, 5}

USTimeIn

View Source 
var ValMap = map[string]Valence{
	POS.String(): POS,
	NEG.String(): NEG,
}

Functions

func NeuronVarIdxByName 

func NeuronVarIdxByName(varNm string) (int, error)

NeuronVarIdxByName returns the index of the variable in the Neuron, or error

func OneHotUS 

func OneHotUS(us US) int

func SynapseVarByName 

func SynapseVarByName(varNm string) (int, error)

VarByName returns variable by name, or error

func Tensor 

func Tensor(us US) etensor.Tensor

func TensorScaled 

func TensorScaled(us US, scale float32) etensor.Tensor

func TotalAct 

func TotalAct(ly emer.Layer) float32

func TraceVarByName 

func TraceVarByName(varNm string) (int, error)

copied from SynapseVarByName

Types

type AcqExt 

type AcqExt int
const (
	Acq AcqExt = iota
	Ext
	NAcqExt
)

func (AcqExt) String 

func (i AcqExt) String() string

type AmygModPrjn 

type AmygModPrjn struct {
	leabra.Prjn
	SetScale    bool        `` /* 550-byte string literal not displayed */
	SetScaleMin float32     `desc:"minimum scale value for SetScale projections"`
	SetScaleMax float32     `desc:"maximum scale value for SetScale projections"`
	InitWtVal   float32     `` /* 303-byte string literal not displayed */
	DALRGain    float32     `desc:"gain multiplier on abs(DA) learning rate multiplier"`
	DALRBase    float32     `` /* 176-byte string literal not displayed */
	DALrnThr    float32     `` /* 234-byte string literal not displayed */
	ActDeltaThr float32     `` /* 207-byte string literal not displayed */
	ActLrnMod   bool        `desc:"if true, recv unit deep_lrn value modulates learning"`
	ActLrnThr   float32     `desc:"only ru->deep_lrn values > this get to learn - 0.05f seems to work okay"`
	DaMod       DaModParams `desc:"parameters for dopaminergic modulation"`
}

AmygModPrjn holds parameters and state variables for modulatory projections to amygdala layers

func (*AmygModPrjn) AsAmygModPrjn 

func (pj *AmygModPrjn) AsAmygModPrjn() *AmygModPrjn

AsAmygModPrjn returns a pointer to the modulatory variables for an amygdala projection

func (*AmygModPrjn) DWt 

func (pj *AmygModPrjn) DWt()

DWt computes DA-modulated weight changes for amygdala layers

func (*AmygModPrjn) Defaults 

func (pj *AmygModPrjn) Defaults()

func (*AmygModPrjn) GaussScale 

func (pj *AmygModPrjn) GaussScale(_, _ int, _, _ *etensor.Shape) float32

GaussScale returns gaussian weight value for given unit indexes in given send and recv layers according to Gaussian Sigma and MaxWt.

func (*AmygModPrjn) InitWts 

func (pj *AmygModPrjn) InitWts()

InitWts sets initial weights, possibly including SetScale calculations

type AvgMaxModLayer 

type AvgMaxModLayer interface {
	AvgMaxMod(*leabra.Time)
}

type BlAmygLayer 

type BlAmygLayer struct {
	ModLayer `desc:"modulation state"`
	Valence  Valence               `desc:"positive or negative valence"`
	ILI      interinhib.InterInhib `desc:"inter-layer inhibition parameters and state"`
}

BlAmygLayer contains values specific to BLA layers, including Interlayer Inhibition (ILI)

func (*BlAmygLayer) AsBlAmygLayer 

func (ly *BlAmygLayer) AsBlAmygLayer() *BlAmygLayer

AsBlAmygLayer returns a pointer to the layer specifically as a BLA layer.

func (*BlAmygLayer) Build 

func (ly *BlAmygLayer) Build() error

func (*BlAmygLayer) Defaults 

func (ly *BlAmygLayer) Defaults()

func (*BlAmygLayer) GetMonitorVal 

func (ly *BlAmygLayer) GetMonitorVal(data []string) float64

GetMonitorVal retrieves a value for a trace of some quantity, possibly more than just a variable

func (*BlAmygLayer) InhibFmGeAct 

func (ly *BlAmygLayer) InhibFmGeAct(ltime *leabra.Time)

InhibiFmGeAct computes inhibition Gi from Ge and Act averages within relevant Pools

type CElAmygLayer 

type CElAmygLayer struct {
	ModLayer
	CElTyp     CElAmygLayerType `desc:"basic parameters determining what type CEl layer this is"`
	AcqDeepMod bool             `` /* 216-byte string literal not displayed */
}

func (*CElAmygLayer) AsCElAmygLayer 

func (ly *CElAmygLayer) AsCElAmygLayer() *CElAmygLayer

func (*CElAmygLayer) Build 

func (ly *CElAmygLayer) Build() error

func (*CElAmygLayer) Defaults 

func (ly *CElAmygLayer) Defaults()

type CElAmygLayerType 

type CElAmygLayerType struct {
	AcqExt  AcqExt  `desc:"acquisition or extinction"`
	Valence Valence `desc:"positive or negative DA valence"`
}

type Context 

type Context int
const (
	CtxA      Context = iota // A
	CtxA_B                   // A_B
	CtxA_C                   // A_C
	CtxB                     // B
	CtxB_B                   // B_B
	CtxB_C                   // B_C
	CtxC                     // C
	CtxC_B                   // C_B
	CtxC_C                   // C_C
	CtxD                     // D
	CtxD_B                   // D_B
	CtxD_C                   // D_C
	CtxE                     // E
	CtxE_B                   // E_B
	CtxE_C                   // E_C
	CtxF                     // F
	CtxF_B                   // F_B
	CtxF_C                   // F_C
	CtxU                     // U
	CtxU_B                   // U_B
	CtxU_C                   // U_C
	CtxV                     // V
	CtxV_B                   // V_B
	CtxV_C                   // V_C
	CtxW                     // W
	CtxW_B                   // W_B
	CtxW_C                   // W_C
	CtxX                     // X
	CtxX_B                   // X_B
	CtxX_C                   // X_C
	CtxY                     // Y
	CtxY_B                   // Y_B
	CtxY_C                   // Y_C
	CtxZ                     // Z
	CtxZ_B                   // Z_B
	CtxZ_C                   // Z_C
	CtxAX                    // AX
	CtxAX_B                  // AX_B
	CtxAX_C                  // AX_C
	CtxAB                    // AB
	CtxAB_B                  // AB_B
	CtxAB_C                  // AB_C
	CtxBY                    // BY
	CtxBY_B                  // BY_B
	CtxBY_C                  // BY_C
	CtxCD                    // CD
	CtxCD_B                  // CD_B
	CtxCD_C                  // CD_C
	CtxCX                    // CX
	CtxCX_B                  // CX_B
	CtxCX_C                  // CX_C
	CtxCY                    // CY
	CtxCY_B                  // CY_B
	CtxCY_C                  // CY_C
	CtxCZ                    // CZ
	CtxCZ_B                  // CZ_B
	CtxCZ_C                  // CZ_C
	CtxDU                    // DU
	CtxNone                  // NoContext
	NContexts = CtxNone
)

func (Context) Empty 

func (ctx Context) Empty() bool

func (Context) FromString 

func (ctx Context) FromString(s string) Inputs

func (Context) Int 

func (ctx Context) Int() int

func (Context) OneHot 

func (ctx Context) OneHot() int

func (Context) Parts 

func (ctx Context) Parts() []int

func (Context) String 

func (i Context) String() string

func (Context) Tensor 

func (ctx Context) Tensor() etensor.Tensor

func (Context) TensorScaled 

func (ctx Context) TensorScaled(scale float32) etensor.Tensor

type DALrnRule 

type DALrnRule int
const (
	DAHebbVS DALrnRule = iota
	TraceNoThalVS
	DALrnRuleN
)

func (DALrnRule) String 

func (i DALrnRule) String() string

type DaModParams 

type DaModParams struct {
	On        bool    `desc:"whether to use dopamine modulation"`
	RecepType DaRType `inactive:"+" desc:"dopamine receptor type, D1 or D2"`
	BurstGain float32 `` /* 173-byte string literal not displayed */
	DipGain   float32 `` /* 241-byte string literal not displayed */
}

DaModParams specifies parameters shared by all layers that receive dopaminergic modulatory input.

type DaRType 

type DaRType int

Dopamine receptor type, for D1R and D2R dopamine receptors 

const (
	// D1R: primarily expresses Dopamine D1 Receptors -- dopamine is excitatory and bursts of dopamine lead to increases in synaptic weight, while dips lead to decreases -- direct pathway in dorsal striatum
	D1R DaRType = iota

	// D2R: primarily expresses Dopamine D2 Receptors -- dopamine is inhibitory and bursts of dopamine lead to decreases in synaptic weight, while dips lead to increases -- indirect pathway in dorsal striatum
	D2R

	DaRTypeN
)

func (DaRType) String 

func (i DaRType) String() string

type DelInhState 

type DelInhState struct {
	GePrvQ   float32 `desc:"netin from previous quarter, used for delayed inhibition"`
	GePrvTrl float32 `desc:"netin from previous \"trial\" (alpha cycle), used for delayed inhibition"`
}

DelInhState contains extra variables for MSNLayer neurons -- stored separately

type DelayedInhibParams 

type DelayedInhibParams struct {
	Active bool    `desc:"add in a portion of inhibition from previous time period"`
	PrvQ   float32 `desc:"proportion of per-unit net input on previous gamma-frequency quarter to add in as inhibition"`
	PrvTrl float32 `desc:"proportion of per-unit net input on previous trial to add in as inhibition"`
}

Delayed inhibition for matrix compartment layers

type IAmygPrjn 

type IAmygPrjn interface {
	AsAmygModPrjn() *AmygModPrjn // recast the projection as a moddulatory projection
}

IAmygPrjn has one method, AsAmygModPrjn, which recasts the projection as a moddulatory projection

type IBlAmygLayer 

type IBlAmygLayer interface {
	AsBlAmygLayer() *BlAmygLayer
}

IBlAmygLayer has one method, AsBlAmygLayer, that returns a pointer to the layer specifically as a BLA layer.

type ICElAmygLayer 

type ICElAmygLayer interface {
	AsCElAmygLayer() *CElAmygLayer
}

type IMSNLayer 

type IMSNLayer interface {
	AsMSNLayer() *MSNLayer
}

type IMSNPrjn 

type IMSNPrjn interface {
	AsMSNPrjn() *MSNPrjn
}

type IModLayer 

type IModLayer interface {
	AsMod() *ModLayer
}

type INetwork 

type INetwork interface {
	AsLeabra() *leabra.Network
}

type ISetScalePrjn 

type ISetScalePrjn interface {
	InitWts()
}

ISetScalePrjn initializes weights, including special scale calculations

type IUS 

type IUS interface {
	Val() Valence
	String() string
	Int() int
}

US, either positive or negative Valence

type Inputs 

type Inputs interface {
	Empty() bool
	FromString(s string) Inputs
	OneHot() int
	Tensor() etensor.Tensor
	TensorScaled(scale float32) etensor.Tensor
}
var Fooey Inputs = POS // for testing

type LHBRMTgInternalState 

type LHBRMTgInternalState struct {
	VSPatchPosD1   float32
	VSPatchPosD2   float32
	VSPatchNegD1   float32
	VSPatchNegD2   float32
	VSMatrixPosD1  float32
	VSMatrixPosD2  float32
	VSMatrixNegD1  float32
	VSMatrixNegD2  float32
	PosPV          float32
	NegPV          float32
	VSPatchPosNet  float32
	VSPatchNegNet  float32
	VSMatrixPosNet float32
	VSMatrixNegNet float32
	NetPos         float32
	NetNeg         float32
}

type LHbRMTgGains 

type LHbRMTgGains struct {
	All                float32 `desc:"final overall gain on everything"`
	VSPatchPosD1       float32 `desc:"patch D1 APPETITIVE pathway - versus pos PV outcomes"`
	VSPatchPosD2       float32 `desc:"patch D2 APPETITIVE pathway versus vspatch_pos_D1"`
	VSPatchPosDisinhib float32 `desc:"proportion of positive reward prediction error (RPE) to use if RPE results from a predicted omission of positive"`
	VSMatrixPosD1      float32 `desc:"gain on VS matrix D1 APPETITIVE guys"`
	VSMatrixPosD2      float32 `desc:"VS matrix D2 APPETITIVE"`
	VSPatchNegD1       float32 `desc:"VS patch D1 pathway versus neg PV outcomes"`
	VSPatchNegD2       float32 `desc:"VS patch D2 pathway versus vspatch_neg_D1"`
	VSMatrixNegD1      float32 `desc:"VS matrix D1 AVERSIVE"`
	VSMatrixNegD2      float32 `desc:"VS matrix D2 AVERSIVE"`
}

Gain constants for LHbRMTg inputs

type LHbRMTgLayer 

type LHbRMTgLayer struct {
	leabra.Layer
	RcvFrom       emer.LayNames
	Gains         LHbRMTgGains         `view:"inline"`
	PVNegDiscount float32              `` /* 180-byte string literal not displayed */
	InternalState LHBRMTgInternalState // for debugging
}

func AddLHbRMTgLayer 

func AddLHbRMTgLayer(nt *Network, name string) *LHbRMTgLayer

func (*LHbRMTgLayer) ActFmG 

func (ly *LHbRMTgLayer) ActFmG(ltime *leabra.Time)

func (*LHbRMTgLayer) Build 

func (ly *LHbRMTgLayer) Build() error

func (*LHbRMTgLayer) Defaults 

func (ly *LHbRMTgLayer) Defaults()

func (*LHbRMTgLayer) GetMonitorVal 

func (ly *LHbRMTgLayer) GetMonitorVal(data []string) float64

GetMonitorVal retrieves a value for a trace of some quantity, possibly more than just a variable

type MSNLayer 

type MSNLayer struct {
	ModLayer
	Compartment StriatalCompartment `inactive:"+" desc:"patch or matrix"`
	DIState     []DelInhState       `desc:"slice of delayed inhibition state for this layer."`
	DIParams    DelayedInhibParams  `view:"no-inline add-fields"`
}

func AddMSNLayer 

func AddMSNLayer(nt *Network, name string, nY, nX, nNeurY, nNeurX int, cpmt StriatalCompartment, da DaRType) *MSNLayer

AddMatrixLayer adds a MSNLayer of given size, with given name. nY = number of pools in Y dimension, nX is pools in X dimension, and each pool has nNeurY, nNeurX neurons. da gives the DaReceptor type (D1R = Go, D2R = NoGo)

func (*MSNLayer) AlphaCycInit 

func (ly *MSNLayer) AlphaCycInit()

func (*MSNLayer) AsMSNLayer 

func (ly *MSNLayer) AsMSNLayer() *MSNLayer

func (*MSNLayer) AsMod 

func (ly *MSNLayer) AsMod() *ModLayer

func (*MSNLayer) Build 

func (ly *MSNLayer) Build() error

Build constructs the layer state, including calling Build on the projections you MUST have properly configured the Inhib.Pool.On setting by this point to properly allocate Pools for the unit groups if necessary.

func (*MSNLayer) ClearMSNTrace 

func (ly *MSNLayer) ClearMSNTrace()

func (*MSNLayer) Defaults 

func (ly *MSNLayer) Defaults()

func (*MSNLayer) GetDA 

func (ly *MSNLayer) GetDA() float32

func (*MSNLayer) GetMonitorVal 

func (ly *MSNLayer) GetMonitorVal(data []string) float64

func (*MSNLayer) InhibFmGeAct 

func (ly *MSNLayer) InhibFmGeAct(ltime *leabra.Time)

InhibFmGeAct computes inhibition Gi from Ge and Act averages within relevant Pools this is here for matrix delyed inhibition, not needed otherwise

func (*MSNLayer) InitActs 

func (ly *MSNLayer) InitActs()

func (*MSNLayer) ModsFmInc 

func (ly *MSNLayer) ModsFmInc(_ *leabra.Time)

func (*MSNLayer) PoolDelayedInhib 

func (ly *MSNLayer) PoolDelayedInhib(pl *leabra.Pool)

func (*MSNLayer) QuarterInitPrvs 

func (ly *MSNLayer) QuarterInitPrvs(ltime *leabra.Time)

func (*MSNLayer) RecvPrjnVals 

func (ly *MSNLayer) RecvPrjnVals(vals *[]float32, varNm string, sendLay emer.Layer, sendIdx1D int, prjnType string) error

func (*MSNLayer) SendPrjnVals 

func (ly *MSNLayer) SendPrjnVals(vals *[]float32, varNm string, recvLay emer.Layer, recvIdx1D int, prjnType string) error

func (*MSNLayer) SetDA 

func (ly *MSNLayer) SetDA(da float32)

type MSNParams 

type MSNParams struct {
	Compartment StriatalCompartment `inactive:"+" desc:"patch or matrix"`
}

Parameters for Dorsal Striatum Medium Spiny Neuron computation

type MSNPrjn 

type MSNPrjn struct {
	leabra.Prjn
	LearningRule DALrnRule
	Trace        MSNTraceParams `view:"inline" desc:"special parameters for striatum trace learning"`
	TrSyns       []TraceSyn     `desc:"trace synaptic state values, ordered by the sending layer units which owns them -- one-to-one with SConIdx array"`
	SLActVar     string         `desc:"sending layer activation variable name"`
	RLActVar     string         `desc:"receiving layer activation variable name"`
	MaxVSActMod  float32        `` /* 230-byte string literal not displayed */
	DaMod        DaModParams    `desc:"parameters for dopaminergic modulation"`
}

MSNPrjn does dopamine-modulated, for striatum-like layers

func (*MSNPrjn) AsMSNPrjn 

func (pj *MSNPrjn) AsMSNPrjn() *MSNPrjn

func (*MSNPrjn) Build 

func (pj *MSNPrjn) Build() error

func (*MSNPrjn) ClearTrace 

func (pj *MSNPrjn) ClearTrace()

func (*MSNPrjn) DWt 

func (pj *MSNPrjn) DWt()

DWt computes the weight change (learning) -- on sending projections.

func (*MSNPrjn) Defaults 

func (pj *MSNPrjn) Defaults()

func (*MSNPrjn) InitWts 

func (pj *MSNPrjn) InitWts()

func (*MSNPrjn) SynVal 

func (pj *MSNPrjn) SynVal(varNm string, sidx, ridx int) float32

func (*MSNPrjn) SynVal1D 

func (pj *MSNPrjn) SynVal1D(varIdx int, synIdx int) float32

SynVal1D returns value of given variable index (from SynVarIdx) on given SynIdx. Returns NaN on invalid index. This is the core synapse var access method used by other methods, so it is the only one that needs to be updated for derived layer types.

func (*MSNPrjn) SynVarIdx 

func (pj *MSNPrjn) SynVarIdx(varNm string) (int, error)

type MSNTraceParams 

type MSNTraceParams struct {
	Deriv       bool    `` /* 305-byte string literal not displayed */
	Decay       float32 `` /* 294-byte string literal not displayed */
	GateLRScale float32 `desc:"learning rate scale factor, if "`
}

Params for for trace-based learning

func (*MSNTraceParams) Defaults 

func (tp *MSNTraceParams) Defaults()

func (*MSNTraceParams) MSNActLrnFactor 

func (tp *MSNTraceParams) MSNActLrnFactor(act float32) float32

LrnFactor returns multiplicative factor for level of msn activation. If Deriv is 2 * act * (1-act) -- the factor of 2 compensates for otherwise reduction in learning from these factors. Otherwise is just act.

type ModLayer 

type ModLayer struct {
	leabra.Layer
	ModNeurs     []ModNeuron     `desc:"neuron-level modulation state"`
	ModPools     []ModPool       `desc:"pools for maintaining aggregate values"`
	ModReceivers []ModRcvrParams `desc:"layer names and scale values for mods sent from this layer"`
	ModParams    `desc:"parameters shared by all modulator receiver layers"`
	DaMod        DaModParams `desc:"parameters for dopaminergic modulation"`
	Modulators   `desc:"layer-level neuromodulator levels"`
}

ModLayer is a layer that RECEIVES modulatory input

func (*ModLayer) ActFmG 

func (ly *ModLayer) ActFmG(_ *leabra.Time)

ActFmG calculates activation from net input, applying modulation values.

func (*ModLayer) AddModReceiver 

func (ly *ModLayer) AddModReceiver(rcvr ModReceiver, scale float32)

AddModReceiver adds a receiving layer to the list of modulatory target layers for a sending layer.

func (*ModLayer) AsLeabra 

func (ly *ModLayer) AsLeabra() *leabra.Layer

AsLeabra gets a pointer to the generic Leabra portion of the layer

func (*ModLayer) AsMod 

func (ly *ModLayer) AsMod() *ModLayer

AsMod returns a pointer to the ModLayer portion of the layer

func (*ModLayer) AvgMaxMod 

func (ly *ModLayer) AvgMaxMod(_ *leabra.Time)

AvgMaxMod runs the standard activation statistics calculation as used for other pools on a layer's ModPools.

func (*ModLayer) Build 

func (ly *ModLayer) Build() error

func (*ModLayer) ClearModActs 

func (ly *ModLayer) ClearModActs()

ClearModActs clears modulatory activation values. This is critical for getting clean results from one trial to the next.

func (*ModLayer) ClearModLevels 

func (ly *ModLayer) ClearModLevels()

ClearModLevels resets modulation state variables to their default values for an entire layer.

func (*ModLayer) DALrnFmDA 

func (ly *ModLayer) DALrnFmDA(da float32) float32

DALrnFmDA returns effective learning dopamine value from given raw DA value applying Burst and Dip Gain factors, and then reversing sign for D2R. GetDa in cemer

func (*ModLayer) Defaults 

func (ly *ModLayer) Defaults()

func (*ModLayer) GScaleFmAvgAct 

func (ly *ModLayer) GScaleFmAvgAct()

GScaleFmAvgAct sets the value of GScale on incoming projections, based on sending layer subpool activations.

func (*ModLayer) GetDA 

func (ly *ModLayer) GetDA() float32

GetDA returns the level of dopaminergic activation for an entire layer.

func (*ModLayer) GetMonitorVal 

func (ly *ModLayer) GetMonitorVal(data []string) float64

GetMonitorVal retrieves a value for a trace of some quantity, possibly more than just a variable

func (*ModLayer) Init 

func (ly *ModLayer) Init()

func (*ModLayer) InitActs 

func (ly *ModLayer) InitActs()

InitActs sets modulation state variables to their default values for a layer, including its pools.

func (*ModLayer) ModSendValue 

func (ly *ModLayer) ModSendValue(ni int32) float32

ModSendValue returns the value of ModSent for one modulatory pool, specified by ni.

func (*ModLayer) ModUnitVals 

func (ly *ModLayer) ModUnitVals(vals *[]float32, varNm string) error

func (*ModLayer) ModsFmInc 

func (ly *ModLayer) ModsFmInc(_ *leabra.Time)

ModsFmInc sets ModLrn and ModLevel based on individual neuron activation and incoming ModNet values.

If ModNet is below threshold, ModLrn is set to 0, and ModLevel is set to either 0 or 1 depending on the value of the ModNetThreshold parameter.

If ModNet is above threshold, ModLrn for each neuron is set to the ratio of its ModNet input to its subpool activation value, with special cases for extreme values.

func (*ModLayer) ReceiveMods 

func (ly *ModLayer) ReceiveMods(sender ModSender, scale float32)

ReceiveMods computes ModNet, based on the value from the sender, times a scale value.

func (*ModLayer) SendMods 

func (ly *ModLayer) SendMods(_ *leabra.Time)

SendMods calculates the level of modulation to send to receivers, based on subpool activations, and calls ReceiveMods for the receivers to process sent values.

func (*ModLayer) SetDA 

func (ly *ModLayer) SetDA(da float32)

SetDA sets the level of dopaminergic activation for an entire layer.

func (*ModLayer) UnitVal1D 

func (ly *ModLayer) UnitVal1D(varIdx int, idx int) float32

UnitVal1D returns value of given variable index on given unit, using 1-dimensional index. returns NaN on invalid index. This is the core unit var access method used by other methods, so it is the only one that needs to be updated for derived layer types.

func (*ModLayer) UnitValByIdx 

func (ly *ModLayer) UnitValByIdx(vidx ModNeuronVar, idx int) float32

UnitValByIdx returns value of given variable by variable index and flat neuron index (from layer or neuron-specific one).

func (*ModLayer) UnitVals 

func (ly *ModLayer) UnitVals(vals *[]float32, varNm string) error

// UnitVals fills in values of given variable name on unit, // for each unit in the layer, into given float32 slice (only resized if not big enough). // Returns error on invalid var name.

func (*ModLayer) UnitValsTensor 

func (ly *ModLayer) UnitValsTensor(tsr etensor.Tensor, varNm string) error

// UnitValsTensor returns values of given variable name on unit // for each unit in the layer, as a float32 tensor in same shape as layer units.

func (*ModLayer) UnitVarIdx 

func (ly *ModLayer) UnitVarIdx(varNm string) (int, error)

UnitVarIdx returns the index of given variable within the Neuron, according to UnitVarNames() list (using a map to lookup index), or -1 and error message if not found.

func (*ModLayer) UnitVarNames 

func (ly *ModLayer) UnitVarNames() []string

UnitVarNames returns a list of variable names available on the units in this layer Mod returns *layer level* vars

func (*ModLayer) UpdateParams 

func (ly *ModLayer) UpdateParams()

UpdateParams passes on an UpdateParams call to the layer's underlying Leabra layer.

type ModNeuron 

type ModNeuron struct {
	Modulators `desc:"neuron-level modulator activation"`
	ModAct     float32 `desc:"activity level for modulation"`
	ModLevel   float32 `desc:"degree of full modulation to apply"`
	ModNet     float32 `desc:"modulation input from sender"`
	ModLrn     float32 `desc:"multiplier for DA modulation of learning rate"`
	PVAct      float32 `desc:"direct activation from US"`
}

ModNeuron encapsulates the variables used by all layers that receive modulatory input

func (*ModNeuron) InitActs 

func (mnr *ModNeuron) InitActs()

InitActs sets modulation state variables to their default values for one neuron.

func (*ModNeuron) VarByIndex 

func (mnr *ModNeuron) VarByIndex(idx int) float32

VarByIndex returns variable using index (0 = first variable in NeuronVars list)

func (*ModNeuron) VarByName 

func (mnr *ModNeuron) VarByName(varNm string) (float32, error)

VarByName returns variable by name, or error

func (*ModNeuron) VarNames 

func (mnr *ModNeuron) VarNames() []string

type ModNeuronVar 

type ModNeuronVar int

NeuronVars are indexes into extra neuron-level variables 

const (
	DA ModNeuronVar = iota
	ACh
	SE
	ModAct
	ModLevel
	ModNet
	ModLrn
	PVAct
	Cust1
	ModNeuronVarsN
)

func (ModNeuronVar) String 

func (i ModNeuronVar) String() string

type ModParams 

type ModParams struct {
	Minus            float32 `` /* 145-byte string literal not displayed */
	Plus             float32 `` /* 144-byte string literal not displayed */
	NegGain          float32 `` /* 214-byte string literal not displayed */
	PosGain          float32 `` /* 214-byte string literal not displayed */
	ActModZero       bool    `` /* 222-byte string literal not displayed */
	ModNetThreshold  float32 `` /* 348-byte string literal not displayed */
	ModSendThreshold float32 `desc:"threshold for including neuron activation in total to send (for ModNet)"`
	IsModSender      bool    `desc:"does this layer send modulation to other layers?"`
	IsModReceiver    bool    `desc:"does this layer receive modulation from other layers?"`
	IsPVReceiver     bool    `desc:"does this layer receive a direct PV input?"`
}

ModParams contains values that control a receiving layer's response to modulatory inputs

func (*ModParams) Gain 

func (dm *ModParams) Gain(da, gain float32, plusPhase bool) float32

Gain returns da-modulated gain value

func (*ModParams) Ge 

func (dm *ModParams) Ge(da, ge float32, plusPhase bool) float32

Ge returns da-modulated ge value

type ModPool 

type ModPool struct {
	ModNetStats      minmax.AvgMax32
	ModSent          float32 `desc:"modulation level transmitted to receiver layers"`
	ModSendThreshold float32 `desc:"threshold for sending modulation. values below this are not added to the pool-level total"`
}

ModPool is similar to a standard Pool structure, and uses the same code to compute running statistics.

type ModRcvrParams 

type ModRcvrParams struct {
	RcvName string  `desc:"name of receiving layer"`
	Scale   float32 `desc:"scale factor for modulation to this receiver"`
}

ModRcvrParams specifies the name of a layer that receives modulatory input, and a scale factor--critical for inputs from large layers such as BLA.

type ModReceiver 

type ModReceiver interface {
	ReceiveMods(sender ModSender, scale float32) // copy incoming modulation values into the layer's own ModNet variable
	ModsFmInc(ltime *leabra.Time)                // set modulation levels
}

ModReceiver has one method to integrate incoming modulation, and another

type ModSender 

type ModSender interface {
	SendMods(ltime *leabra.Time)
	ModSendValue(ni int32) float32
}

ModSender has methods for sending modulation, and setting the value to be sent.

type Modulators 

type Modulators struct {
	DA  float32 `desc:"current dopamine level for this layer"`
	ACh float32 `desc:"current acetylcholine level for this layer"`
	SE  float32 `desc:"current serotonin level for this layer"`
}

Modulators are modulatory neurotransmitters. Currently ACh and SE are only placeholders.

func (*Modulators) InitActs 

func (ml *Modulators) InitActs()

InitActs zeroes activation levels for a set of modulator variables.

type NegUS 

type NegUS US
const (
	Shock NegUS = iota
	Nausea
	Sharp
	OtherNeg
	NegUSNone // NoNegUS
	NNegUS    = NegUSNone
)

func (NegUS) FromString 

func (neg NegUS) FromString(s string) NegUS

func (NegUS) Int 

func (neg NegUS) Int() int

func (NegUS) NegUSEmpty 

func (neg NegUS) NegUSEmpty() bool

func (NegUS) OneHot 

func (neg NegUS) OneHot() int

func (NegUS) String 

func (i NegUS) String() string

func (NegUS) Tensor 

func (neg NegUS) Tensor() etensor.Tensor

func (NegUS) Val 

func (neg NegUS) Val() Valence

type Network 

type Network struct {
	leabra.Network
}

func (*Network) AddBlAmygLayer 

func (nt *Network) AddBlAmygLayer(name string, nY, nX, nNeurY, nNeurX int, val Valence, dar DaRType, lTyp emer.LayerType) *BlAmygLayer

AddBlAmygLayer adds a Basolateral Amygdala layer with specified 4D geometry, acquisition/extinction, valence, and DA receptor type

func (*Network) AddCElAmygLayer 

func (nt *Network) AddCElAmygLayer(name string, nY, nX, nNeurY, nNeurX int,
	acqExt AcqExt, val Valence, dar DaRType) *CElAmygLayer

AddCElAmygLayer adds a CentroLateral Amygdala layer with specified 4D geometry, acquisition/extinction, valence, and DA receptor type

Geometry is 4D.

nY = number of pools in Y dimension, nX is pools in X dimension, and each pool has nNeurY * nNeurX neurons. da parameter gives the DaReceptor type (D1R = Go, D2R = NoGo). acqExt (AcqExt) specifies whether this layer is involved with acquisition or extinction. val is positive (appetitive) or negative (aversive) Valence.

func (*Network) AddMSNLayer 

func (nt *Network) AddMSNLayer(name string, nY, nX, nNeurY, nNeurX int, cpmt StriatalCompartment, da DaRType) *MSNLayer

AddMatrixLayer adds a MSNLayer of given size, with given name.

Geometry is 4D.

nY = number of pools in Y dimension, nX is pools in X dimension, and each pool has nNeurY * nNeurX neurons.

cpmt specifies patch or matrix StriatalCompartment

da parameter gives the DaReceptor type (DaRType) (D1R = Go, D2R = NoGo)

func (*Network) AddVTALayer 

func (nt *Network) AddVTALayer(name string, val Valence) *VTALayer

AddVTALayer adds a positive or negative Valence VTA layer

func (*Network) AsLeabra 

func (nt *Network) AsLeabra() *leabra.Network

func (*Network) AvgMaxMod 

func (nt *Network) AvgMaxMod(ltime *leabra.Time)

func (*Network) ClearMSNTraces 

func (nt *Network) ClearMSNTraces(_ *leabra.Time)

func (*Network) ClearModActs 

func (nt *Network) ClearModActs(_ *leabra.Time)

func (*Network) ConnectLayersActMod 

func (nt *Network) ConnectLayersActMod(sender ModSender, rcvr ModReceiver, scale float32)

func (*Network) Cycle 

func (nt *Network) Cycle(ltime *leabra.Time)

func (*Network) CycleImpl 

func (nt *Network) CycleImpl(ltime *leabra.Time)

func (*Network) InitActs 

func (nt *Network) InitActs()

func (*Network) QuarterInitPrvs 

func (nt *Network) QuarterInitPrvs(ltime *leabra.Time)

func (*Network) RecvModInc 

func (nt *Network) RecvModInc(ltime *leabra.Time)

func (*Network) SendMods 

func (nt *Network) SendMods(ltime *leabra.Time)

func (*Network) SynVarNames 

func (nt *Network) SynVarNames() []string

func (*Network) SynVarProps 

func (nt *Network) SynVarProps() map[string]string

SynVarProps returns properties for variables

func (*Network) UnitVarNames 

func (nt *Network) UnitVarNames() []string

UnitVarNames returns a list of variable names available on the units in this layer

type PPTgLayer 

type PPTgLayer struct {
	leabra.Layer
	Ge              float32
	GePrev          float32
	SendAct         float32
	DA              float32
	DNetGain        float32 `desc:"gain on input activation"`
	ActThreshold    float32 `desc:"activation threshold for passing through"`
	ClampActivation bool    `desc:"clamp activation directly, after applying gain"`
}

The PPTg passes on a positively-rectified version of its input signal.

func AddPPTgLayer 

func AddPPTgLayer(nt *Network, name string, nY, nX int) *PPTgLayer

Add a Pedunculopontine Gyrus layer. Acts as a positive rectifier for its inputs.

func (*PPTgLayer) ActFmG 

func (ly *PPTgLayer) ActFmG(_ *leabra.Time)

func (*PPTgLayer) Build 

func (ly *PPTgLayer) Build() error

func (*PPTgLayer) Defaults 

func (ly *PPTgLayer) Defaults()

func (*PPTgLayer) GetDA 

func (ly *PPTgLayer) GetDA() float32

func (*PPTgLayer) GetMonitorVal 

func (ly *PPTgLayer) GetMonitorVal(data []string) float64

GetMonitorVal retrieves a value for a trace of some quantity, possibly more than just a variable

func (*PPTgLayer) InitActs 

func (ly *PPTgLayer) InitActs()

func (*PPTgLayer) QuarterFinal 

func (ly *PPTgLayer) QuarterFinal(ltime *leabra.Time)

func (*PPTgLayer) SetDA 

func (ly *PPTgLayer) SetDA(da float32)

type PVLayer 

type PVLayer struct {
	leabra.Layer
	Net           *Network
	SendPVQuarter int
	PVReceivers   emer.LayNames
}

Primary Value input layer. Sends activation directly to its receivers, bypassing the standard mechanisms.

func AddPVLayer 

func AddPVLayer(nt *Network, name string, nY, nX int, typ emer.LayerType) *PVLayer

func (*PVLayer) AddPVReceiver 

func (ly *PVLayer) AddPVReceiver(lyNm string)

func (*PVLayer) Build 

func (ly *PVLayer) Build() error

func (*PVLayer) CyclePost 

func (ly *PVLayer) CyclePost(ltime *leabra.Time)

func (*PVLayer) GetMonitorVal 

func (ly *PVLayer) GetMonitorVal(data []string) float64

func (*PVLayer) SendPVAct 

func (ly *PVLayer) SendPVAct()

type PackedUSTimeState 

type PackedUSTimeState int64
const USTimeNone PackedUSTimeState = 0

func PUSTFromString 

func PUSTFromString(s string) PackedUSTimeState

func (PackedUSTimeState) Empty 

func (ps PackedUSTimeState) Empty() bool

func (PackedUSTimeState) FromString 

func (pus PackedUSTimeState) FromString(s string) PackedUSTimeState

func (PackedUSTimeState) Shape 

func (ps PackedUSTimeState) Shape() []int

func (PackedUSTimeState) Stim 

func (ps PackedUSTimeState) Stim() Stim

func (PackedUSTimeState) String 

func (ps PackedUSTimeState) String() string

func (PackedUSTimeState) Tensor 

func (ps PackedUSTimeState) Tensor() etensor.Tensor

func (PackedUSTimeState) TensorScaled 

func (ps PackedUSTimeState) TensorScaled(scale float32) etensor.Tensor

func (PackedUSTimeState) US 

func (ps PackedUSTimeState) US() US

func (PackedUSTimeState) USTimeIn 

func (ps PackedUSTimeState) USTimeIn() Tick

func (PackedUSTimeState) Unpack 

func (ps PackedUSTimeState) Unpack() USTimeState

func (PackedUSTimeState) Valence 

func (ps PackedUSTimeState) Valence() Valence

type PosUS 

type PosUS US

positive and negative subtypes of US 

const (
	Water PosUS = iota
	Food
	Mate
	OtherPos
	PosUSNone // NoPosUS
	NPosUS    = PosUSNone
)

func (PosUS) FromString 

func (pos PosUS) FromString(s string) PosUS

func (PosUS) Int 

func (pos PosUS) Int() int

func (PosUS) OneHot 

func (pos PosUS) OneHot() int

func (PosUS) PosUSEmpty 

func (pos PosUS) PosUSEmpty() bool

func (PosUS) String 

func (i PosUS) String() string

func (PosUS) Tensor 

func (pos PosUS) Tensor() etensor.Tensor

func (PosUS) Val 

func (pos PosUS) Val() Valence

type Stim 

type Stim int
const (
	StmA    Stim = iota // A
	StmB                // B
	StmC                // C
	StmD                // D
	StmE                // E
	StmF                // F
	StmU                // U
	StmV                // V
	StmW                // W
	StmX                // X
	StmY                // Y
	StmZ                // Z
	StmNone             // NoStim
	StimN   = StmNone
)

func (Stim) Empty 

func (stm Stim) Empty() bool

func (Stim) FromString 

func (stm Stim) FromString(s string) Inputs

func (Stim) OneHot 

func (stm Stim) OneHot() int

func (Stim) String 

func (i Stim) String() string

func (Stim) Tensor 

func (stm Stim) Tensor() etensor.Tensor

func (Stim) TensorScaled 

func (stm Stim) TensorScaled(scale float32) etensor.Tensor

type StriatalCompartment 

type StriatalCompartment int
const (
	PATCH StriatalCompartment = iota
	MATRIX
	NSComp
)

func (StriatalCompartment) String 

func (i StriatalCompartment) String() string

type Tick 

type Tick int

Tick 

const (
	T0 Tick = iota
	T1
	T2
	T3
	T4
	T5
	T6
	T7
	T8
	T9
	TckNone
	TickN = TckNone
)

func (Tick) Empty 

func (t Tick) Empty() bool

func (Tick) FromString 

func (t Tick) FromString(s string) Inputs

func (Tick) Int 

func (t Tick) Int() int

func (Tick) OneHot 

func (t Tick) OneHot() int

func (Tick) String 

func (i Tick) String() string

func (Tick) Tensor 

func (t Tick) Tensor() etensor.Tensor

func (Tick) TensorScaled 

func (t Tick) TensorScaled(scale float32) etensor.Tensor

type TraceSyn 

type TraceSyn struct {
	NTr float32 `` /* 136-byte string literal not displayed */
	Tr  float32 `` /* 183-byte string literal not displayed */
}

TraceSyn holds extra synaptic state for trace projections

func (*TraceSyn) SetVarByIndex 

func (tr *TraceSyn) SetVarByIndex(idx int, val float32)

func (*TraceSyn) SetVarByName 

func (tr *TraceSyn) SetVarByName(varNm string, val float32) error

SetVarByName sets synapse variable to given value

func (*TraceSyn) VarByIndex 

func (tr *TraceSyn) VarByIndex(idx int) float32

VarByIndex returns variable using index (0 = first variable in SynapseVars list)

func (*TraceSyn) VarNames 

func (tr *TraceSyn) VarNames() []string

type US 

type US int

func (US) Empty 

func (us US) Empty() bool

func (US) FromString 

func (us US) FromString(s string) Inputs

func (US) Int 

func (us US) Int() int

func (US) OneHot 

func (us US) OneHot() int

func (US) String 

func (us US) String() string

func (US) Tensor 

func (us US) Tensor() etensor.Tensor

func (US) TensorScaled 

func (us US) TensorScaled(scale float32) etensor.Tensor
func (pos PosUS) TensorScaled(scale float32) etensor.Tensor {
	return TensorScaled(pos, 1.0 / scale)
}

func (neg NegUS) TensorScaled(scale float32) etensor.Tensor {
	return TensorScaled(neg, 1.0 / scale)
}

func (US) Val 

func (us US) Val() Valence

type USTimeState 

type USTimeState struct {
	Stm Stim    `desc:"CS value"`
	US  US      `desc:"a US value or absent (USNone)"`
	Val Valence `desc:"PV d, POS, NEG, or absent (ValNone)"`
	Tck Tick    `desc:"Within-trial timestep"`
}

func USTFromString 

func USTFromString(uss string) USTimeState

func (USTimeState) Coords 

func (usts USTimeState) Coords() []int

func (USTimeState) CoordsString 

func (usts USTimeState) CoordsString() string

func (USTimeState) Empty 

func (usts USTimeState) Empty() bool

func (USTimeState) EnumVal 

func (usts USTimeState) EnumVal() int

func (USTimeState) OneHot 

func (usts USTimeState) OneHot(scale float32) etensor.Tensor

func (USTimeState) Pack 

func (usts USTimeState) Pack() PackedUSTimeState

func (USTimeState) String 

func (usts USTimeState) String() string

func (USTimeState) Tensor 

func (usts USTimeState) Tensor() etensor.Tensor

func (USTimeState) TensorScaleAndAdd 

func (usts USTimeState) TensorScaleAndAdd(scale float32, other USTimeState) etensor.Tensor

func (USTimeState) TensorScaled 

func (usts USTimeState) TensorScaled(scale float32) etensor.Tensor

func (USTimeState) TsrOffset 

func (usts USTimeState) TsrOffset() []int

type VTADAGains 

type VTADAGains struct {
	DA                float32 `desc:"overall multiplier for dopamine values"`
	PPTg              float32 `desc:"gain on bursts from PPTg"`
	LHb               float32 `desc:"gain on dips/bursts from LHbRMTg"`
	PV                float32 `desc:"gain on positive PV component of total phasic DA signal (net after subtracting VSPatchIndir (PVi) shunt signal)"`
	PVIBurstShunt     float32 `desc:"gain on VSPatch projection that shunts bursting in VTA (for VTAp = VSPatchPosD1, for VTAn = VSPatchNegD2)"`
	PVIAntiBurstShunt float32 `desc:"gain on VSPatch projection that opposes shunting of bursting in VTA (for VTAp = VSPatchPosD2, for VTAn = VSPatchNegD1)"`
	PVIDipShunt       float32 `` /* 146-byte string literal not displayed */
	PVIAntiDipShunt   float32 `desc:"gain on VSPatch projection that opposes the shunting of dipping in VTA (currently only VTAp supported = VSPatchNegD1)"`
}

Gain constants for inputs to the VTA

func (*VTADAGains) Defaults 

func (dag *VTADAGains) Defaults()

type VTALayer 

type VTALayer struct {
	rl.ClampDaLayer
	SendVal       float32
	Valence       Valence    `desc:"VTA layer DA valence, positive or negative"`
	TonicDA       float32    `desc:"set a tonic 'dopamine' (DA) level (offset to add to da values)"`
	DAGains       VTADAGains `view:"inline" desc:"gains for various VTA inputs"`
	RecvFrom      map[string]emer.Layer
	InternalState VTAState `desc:"input values--for debugging only"`
}

VTA internal state

func AddVTALayer 

func AddVTALayer(nt *Network, name string, val Valence) *VTALayer

func (*VTALayer) ActFmG 

func (ly *VTALayer) ActFmG(ltime *leabra.Time)

func (*VTALayer) Build 

func (ly *VTALayer) Build() error

func (*VTALayer) CyclePost 

func (ly *VTALayer) CyclePost(_ *leabra.Time)

func (*VTALayer) Defaults 

func (ly *VTALayer) Defaults()

func (*VTALayer) GetMonitorVal 

func (ly *VTALayer) GetMonitorVal(data []string) float64

GetMonitorVal is for monitoring during run. Includes values beyond the scope of neuron fields.

func (*VTALayer) VTAAct 

func (ly *VTALayer) VTAAct(ltime *leabra.Time)

func (*VTALayer) VTAActN 

func (ly *VTALayer) VTAActN(_ *leabra.Time)

VTAn activation

func (*VTALayer) VTAActP 

func (ly *VTALayer) VTAActP(_ *leabra.Time)

VTAp activation

type VTAState 

type VTAState struct {
	PPTgDAp    float32
	LHbDA      float32
	PosPVAct   float32
	VSPosPVI   float32
	VSNegPVI   float32
	BurstLHbDA float32
	DipLHbDA   float32
	TotBurstDA float32
	TotDipDA   float32
	NetDipDA   float32
	NetDA      float32
	SendVal    float32
}

monitoring and debugging only. Received values from all inputs

type Valence 

type Valence int

Valence 

const (
	ValNone Valence = iota // NoValence
	POS
	NEG
	ValenceN
)

func (Valence) Empty 

func (val Valence) Empty() bool

func (Valence) FromString 

func (val Valence) FromString(s string) Inputs

func (Valence) Negate 

func (val Valence) Negate() Valence

func (Valence) OneHot 

func (val Valence) OneHot() int

func (Valence) String 

func (i Valence) String() string

func (Valence) Tensor 

func (val Valence) Tensor() etensor.Tensor

func (Valence) TensorScaled 

func (val Valence) TensorScaled(scale float32) etensor.Tensor

Source Files

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