Inheritance diagram for PV::PointLIFProbe:

BaseProbe Parameters
List of parameters for the BaseProbe class
virtual void	ioParam_message (enum ParamsIOFlag ioFlag)
	message: A string parameter that is typically included in the lines output by the outputState method

virtual void	ioParam_textOutputFlag (enum ParamsIOFlag ioFlag)
	textOutputFlag: A boolean parameter that sets whether to generate an output file. Defaults to true.

virtual void	ioParam_probeOutputFile (enum ParamsIOFlag ioFlag)
	probeOutputFile: If textOutputFlag is true, probeOutputFile specifies the name of the file that the outputState method writes to. If blank, the output is sent to the output stream.

virtual void	ioParam_triggerFlag (enum ParamsIOFlag ioFlag)
	triggerFlag: If false, the needUpdate method always returns true, so that outputState is called every timestep. If true, the needUpdate method uses triggerLayerName and triggerOffset to determine if the probe should be triggered.

virtual void	ioParam_triggerLayerName (enum ParamsIOFlag ioFlag)
	triggerLayerName: If triggerFlag is true, triggerLayerName specifies the layer to check for triggering.

virtual void	ioParam_triggerOffset (enum ParamsIOFlag ioFlag)
	triggerOffset: If triggerFlag is true, triggerOffset specifies the time interval before the triggerLayer's nextUpdate time that needUpdate() returns true.

virtual void	ioParam_energyProbe (enum ParamsIOFlag ioFlag)
	energyProbe: If nonblank, specifies the name of a ColumnEnergyProbe that this probe contributes an energy term to.

virtual void	ioParam_coefficient (enum ParamsIOFlag ioFlag)
	coefficient: If energyProbe is set, the coefficient parameter specifies that ColumnEnergyProbe multiplies the result of this probe's getValues() method by coefficient when computing the error. More...

LayerProbe Parameters
List of parameters for the LayerProbe class
virtual void	ioParam_targetName (enum ParamsIOFlag ioFlag) override
	targetName: the name of the layer to attach the probe to. In LayerProbes, targetLayer can be used in the params file instead of targetName. LayerProbe looks for targetLayer first and then targetName.

Public Member Functions
	PointLIFProbe (const char name, HyPerCol hc)

virtual Response::Status	communicateInitInfo (std::shared_ptr< CommunicateInitInfoMessage const > message) override

double	getCoefficient ()

bool	getDataStructuresAllocatedFlag () const

std::string const &	getDescription () const

char const *	getDescription_c () const

char const *	getEnergyProbe ()

bool	getInitialValuesSetFlag () const

bool	getInitInfoCommunicatedFlag () const

double	getLastUpdateTime ()

MPIBlock const *	getMPIBlock ()

char const *	getName () const

int	getNumValues ()

std::string const &	getObjectType () const

HyPerLayer *	getTargetLayer ()

const char *	getTargetName ()

double	getValue (double timevalue, int index)

void	getValues (double timevalue, double *valuesVector)

void	getValues (double timevalue, std::vector< double > *valuesVector)

void	ioParams (enum ParamsIOFlag ioFlag, bool printHeader, bool printFooter)

bool	isUsingGPU () const

char const *	lookupKeyword () const

virtual Response::Status	outputState (double timef) override

virtual Response::Status	outputStateWrapper (double timef, double dt)

void	readParams ()

virtual Response::Status	registerData (Checkpointer *checkpointer) override

virtual Response::Status	respond (std::shared_ptr< BaseMessage const > message) override

void	writeParams ()

virtual int	writeTimer (PrintStream &stream)

Protected Member Functions
virtual Response::Status	allocateDataStructures ()

virtual void	calcValues (double timevalue) override

virtual Response::Status	cleanup ()

virtual Response::Status	copyInitialStateToGPU ()

const char *	getMessage ()

char const *	getProbeOutputFilename ()

bool	getTextOutputFlag () const

void	getValues (double timevalue)

double *	getValuesBuffer ()

int	initialize (const char name, HyPerCol hc)

virtual Response::Status	initializeState ()

virtual int	initMessage (const char *msg)

virtual void	initNumValues () override

virtual void	initOutputStreams (const char filename, Checkpointer checkpointer) override

virtual void	ioParam_batchLoc (enum ParamsIOFlag ioFlag)

virtual void	ioParam_fLoc (enum ParamsIOFlag ioFlag)

virtual void	ioParam_writeStep (enum ParamsIOFlag ioFlag)

virtual void	ioParam_xLoc (enum ParamsIOFlag ioFlag)

virtual void	ioParam_yLoc (enum ParamsIOFlag ioFlag)

virtual int	ioParamsFillGroup (enum ParamsIOFlag ioFlag) override

bool	isWritingToFile () const

virtual bool	needRecalc (double timevalue) override

virtual bool	needUpdate (double time, double dt)

PrintStream &	output (int b)

virtual Response::Status	prepareCheckpointWrite ()

virtual Response::Status	processCheckpointRead ()

virtual Response::Status	readStateFromCheckpoint (Checkpointer *checkpointer) override

virtual double	referenceUpdateTime () const override

Response::Status	respondAllocateData (std::shared_ptr< AllocateDataMessage const > message)

Response::Status	respondCleanup (std::shared_ptr< CleanupMessage const > message)

Response::Status	respondCommunicateInitInfo (std::shared_ptr< CommunicateInitInfoMessage const > message)

Response::Status	respondCopyInitialStateToGPU (std::shared_ptr< CopyInitialStateToGPUMessage const > message)

Response::Status	respondInitializeState (std::shared_ptr< InitializeStateMessage const > message)

Response::Status	respondPrepareCheckpointWrite (std::shared_ptr< PrepareCheckpointWriteMessage const > message)

Response::Status	respondProcessCheckpointRead (std::shared_ptr< ProcessCheckpointReadMessage const > message)

Response::Status	respondReadStateFromCheckpoint (std::shared_ptr< ReadStateFromCheckpointMessage< Checkpointer > const > message)

Response::Status	respondRegisterData (std::shared_ptr< RegisterDataMessage< Checkpointer > const > message)

Response::Status	respondSetCudaDevice (std::shared_ptr< SetCudaDeviceMessage const > message)

virtual Response::Status	setCudaDevice (std::shared_ptr< SetCudaDeviceMessage const > message)

void	setDataStructuresAllocatedFlag ()

void	setDescription ()

void	setInitialValuesSetFlag ()

void	setInitInfoCommunicatedFlag ()

int	setName (char const *name)

void	setNumValues (int n)

virtual void	setObjectType () override

int	setParent (HyPerCol *hc)

virtual void	writeState (double timevalue) override

Protected Attributes
int	batchLoc

double	coefficient

std::string	description

char *	energyProbe

int	fLoc

PVCuda::CudaDevice *	mCudaDevice = nullptr

bool	mInitialValuesSetFlag = false

std::string	mObjectType

std::vector< PrintStream * >	mOutputStreams

bool	mUsingGPUFlag = false

char *	name = nullptr

HyPerCol *	parent = nullptr

HyPerLayer *	targetLayer

char *	targetName

bool	triggerFlag

HyPerLayer *	triggerLayer

char *	triggerLayerName

double	triggerOffset

double	writeStep

double	writeTime

int	xLoc

int	yLoc

Private Member Functions
int	initialize_base ()

Detailed Description

Definition at line 15 of file PointLIFProbe.hpp.

Member Function Documentation

void PV::PointLIFProbe::calcValues ( double timevalue )

overrideprotectedvirtual

Overrides PointProbe::calcValues to report the conductances and threshold V as well as V and A. Note that under MPI, only the root process and the process containing the neuron being probed contain the values.

Reimplemented from PV::PointProbe.

Definition at line 57 of file PointLIFProbe.cpp.

Response::Status PV::PointProbe::communicateInitInfo ( std::shared_ptr< CommunicateInitInfoMessage const > message )

overridevirtualinherited

Called by HyPerCol::run. It calls BaseProbe::communicateInitInfo, then checks that the targetLayer/targetName parameter refers to a HyPerLayer in the parent HyPerCol, and then calls the layer's insertProbe method.

Reimplemented from PV::LayerProbe.

Definition at line 68 of file PointProbe.cpp.

double PV::BaseProbe::getCoefficient ( )

inlineinherited

Returns the coefficient if the energy probe is set.

Definition at line 95 of file BaseProbe.hpp.

bool PV::BaseObject::getDataStructuresAllocatedFlag ( ) const

inlineinherited

Get-method for mDataStructuresAllocatedFlag, which is false on initialization and then becomes true once setDataStructuresAllocatedFlag() is called.

Definition at line 102 of file BaseObject.hpp.

char const* PV::BaseProbe::getEnergyProbe ( )

inlineinherited

Returns the name of the energy probe the probe is attached to (null if not attached to an energy probe)

Definition at line 90 of file BaseProbe.hpp.

bool PV::BaseObject::getInitialValuesSetFlag ( ) const

inlineinherited

Get-method for mInitialValuesSetFlag, which is false on initialization and then becomes true once setInitialValuesSetFlag() is called.

Definition at line 108 of file BaseObject.hpp.

bool PV::BaseObject::getInitInfoCommunicatedFlag ( ) const

inlineinherited

Get-method for mInitInfoCommunicatedFlag, which is false on initialization and then becomes true once setInitInfoCommunicatedFlag() is called.

Definition at line 95 of file BaseObject.hpp.

double PV::BaseProbe::getLastUpdateTime ( )

inlineinherited

Returns the time that calcValues was last called. BaseProbe updates the last update time in getValues() and getValue(), based on the result of needRecalc.

Definition at line 102 of file BaseProbe.hpp.

const char* PV::BaseProbe::getMessage ( )

inlineprotectedinherited

Returns a pointer to the message parameter.

Definition at line 280 of file BaseProbe.hpp.

int PV::BaseProbe::getNumValues ( )

inlineinherited

Returns the number of value indices the probe can compute (typically the value of the parent HyPerCol's nBatch parameter). BaseProbe::getNumValues() returns the parent HyPerCol's getNBatch(), which can be overridden. Probes derived from BaseProbe can set numValues to zero or a negative number to indicate that getValues() and getNumValues() are not fully implemented for that probe.

Definition at line 61 of file BaseProbe.hpp.

char const* PV::BaseProbe::getProbeOutputFilename ( )

inlineprotectedinherited

Returns the probeOutputFilename parameter

Definition at line 314 of file BaseProbe.hpp.

const char* PV::BaseProbe::getTargetName ( )

inlineinherited

Returns the name of the targetName parameter for this probe. LayerProbe uses targetName to specify the layer to attach to; BaseConnectionProbe uses it to specify the connection to attach to.

Definition at line 83 of file BaseProbe.hpp.

bool PV::BaseProbe::getTextOutputFlag ( ) const

inlineprotectedinherited

Returns the value of the textOutputFlag parameter

Definition at line 324 of file BaseProbe.hpp.

double PV::BaseProbe::getValue	(	double	timevalue,
		int	index
	)

inherited

getValue() is meant for situations where the caller needs one value that would be returned by getValues(), not the whole buffer. getValue() returns a signaling NaN if index is out of bounds. If index is valid, getValue() calls calcValues() if needRecalc() returns true, and then returns probeValues[index]. Derived classes should not override or hide this method. Instead, they should override calcValues.

Definition at line 346 of file BaseProbe.cpp.

void PV::BaseProbe::getValues	(	double	timevalue,
		double *	valuesVector
	)

inherited

getValues(double timevalue, double * values) sets the buffer 'values' with the probe's calculated values. It assumes that the values buffer is large enough to hold getNumValues() double-precision values. If 'values' is NULL, the values are still updated internally if needed, but those values are not returned. Internally, getValues() calls calcValues() if needRecalc() is true. It then copies the probeValues buffer to the input argument buffer 'values'. Derived classes should not override or hide this method. Instead, they should override calcValues.

Definition at line 336 of file BaseProbe.cpp.

void PV::BaseProbe::getValues	(	double	timevalue,
		std::vector< double > *	valuesVector
	)

inherited

getValues(double timevalue, vector<double> * valuesVector) is a wrapper around getValues(double, double *) that uses C++ vectors. It resizes valuesVector to size getNumValues() and then fills the vector with the values returned by getValues.

Definition at line 341 of file BaseProbe.cpp.

void PV::BaseProbe::getValues ( double timevalue )

protectedinherited

If needRecalc() returns true, getValues(double) updates the probeValues buffer (by calling calcValues) and sets lastUpdateTime to the timevalue input argument.

Definition at line 329 of file BaseProbe.cpp.

double* PV::BaseProbe::getValuesBuffer ( )

inlineprotectedinherited

Returns a pointer to the buffer containing the probeValues.

Definition at line 319 of file BaseProbe.hpp.

int PV::BaseProbe::initMessage ( const char * msg )

protectedvirtualinherited

The method called by BaseProbe::initialize() to set the message used by the probe's outputState method.

Definition at line 282 of file BaseProbe.cpp.

void PV::PointLIFProbe::initNumValues ( )

overrideprotectedvirtual

Overrides initNumValues to set numValues to 6 (G_E, G_I, G_IB, V, Vth, a)

Reimplemented from PV::PointProbe.

Definition at line 55 of file PointLIFProbe.cpp.

void PV::PointProbe::initOutputStreams	(	const char *	filename,
		Checkpointer *	checkpointer
	)

overrideprotectedvirtualinherited

Overrides initOutputStreams. A process whose restricted region contains the indicated point has an mOutputStreams vector whose length is the local batch width. Other processes have an empty mOutputStreams vector.

Reimplemented from PV::BaseProbe.

Definition at line 121 of file PointProbe.cpp.

void PV::BaseProbe::ioParam_coefficient ( enum ParamsIOFlag ioFlag )

protectedvirtualinherited

coefficient: If energyProbe is set, the coefficient parameter specifies that ColumnEnergyProbe multiplies the result of this probe's getValues() method by coefficient when computing the error.

Note that coefficient does not affect the value returned by the getValue() or getValues() method.

Reimplemented in PV::FirmThresholdCostFnLCAProbe, PV::L0NormLCAProbe, and PV::L1NormLCAProbe.

Definition at line 106 of file BaseProbe.cpp.

void PV::BaseObject::ioParams	(	enum ParamsIOFlag	ioFlag,
		bool	printHeader,
		bool	printFooter
	)

inherited

Method for reading or writing the params from group in the parent HyPerCol's parameters. The group from params is selected using the name of the connection.

If ioFlag is set to write, the printHeader and printFooter flags control whether a header and footer for the parameter group is produces. These flags are set to true for layers, connections, and probes; and set to false for weight initializers and normalizers. If ioFlag is set to read, the printHeader and printFooter flags are ignored.

Note that ioParams is not virtual. To add parameters in a derived class, override ioParamFillGroup.

Definition at line 74 of file BaseObject.cpp.

int PV::PointLIFProbe::ioParamsFillGroup ( enum ParamsIOFlag ioFlag )

overrideprotectedvirtual

The virtual method for reading parameters from the parent HyPerCol's parameters, and writing to the output params file.

Derived classes with additional parameters typically override ioParamsFillGroup to call the base class's ioParamsFillGroup method and then call ioParam_[parametername] for each of their parameters. The ioParam_[parametername] methods should call the parent HyPerCol's ioParamValue() and related methods, to ensure that all parameters that get read also get written to the outputParams-generated file.

Reimplemented from PV::PointProbe.

Definition at line 43 of file PointLIFProbe.cpp.

bool PV::BaseObject::isUsingGPU ( ) const

inlineinherited

Returns true if the object requires the GPU; false otherwise. HyPerCol will not initialize the GPU unless one of the objects in its hierarchy returns true

Definition at line 116 of file BaseObject.hpp.

bool PV::BaseProbe::isWritingToFile ( ) const

inlineprotectedinherited

Returns true if a probeOutputFile is being used. Otherwise, returns false (indicating output is going to getOutputStream().

Definition at line 330 of file BaseProbe.hpp.

char const * PV::BaseObject::lookupKeyword ( ) const

inherited

Look up the keyword of the params group with the same name as the object.

Definition at line 42 of file BaseObject.cpp.

bool PV::LayerProbe::needRecalc ( double timevalue )

overrideprotectedvirtualinherited

Implements the needRecalc method. Returns true if the target layer's getLastUpdateTime method is greater than the probe's lastUpdateTime member variable.

Implements PV::BaseProbe.

Reimplemented in PV::StatsProbe.

Definition at line 77 of file LayerProbe.cpp.

bool PV::BaseProbe::needUpdate	(	double	time,
		double	dt
	)

protectedvirtualinherited

If there is a triggering layer, needUpdate returns true when the triggering layer's nextUpdateTime, modified by the probe's triggerOffset parameter, occurs; otherwise false. If there is not a triggering layer, needUpdate always returns true. This behavior can be overridden if a probe uses some criterion other than triggering to choose when output its state.

Reimplemented in PV::AdaptiveTimeScaleProbe.

Definition at line 313 of file BaseProbe.cpp.

PrintStream& PV::BaseProbe::output ( int b )

inlineprotectedinherited

Returns a reference to the PrintStream for the given batch element

Definition at line 291 of file BaseProbe.hpp.

Response::Status PV::PointProbe::outputState ( double timef )

overridevirtualinherited

NOTES:

Only the activity buffer covers the extended frame - this is the frame that includes boundaries.
The membrane potential V covers the "real" or "restricted" frame.
In MPI runs, xLoc and yLoc refer to global coordinates. writeState is only called by the processor with (xLoc,yLoc) in its non-extended region.

Implements PV::BaseProbe.

Definition at line 164 of file PointProbe.cpp.

Response::Status PV::BaseProbe::outputStateWrapper	(	double	timef,
		double	dt
	)

virtualinherited

The public interface for calling the outputState method. BaseConnection::outputStateWrapper calls outputState() if needUpdate() returns true. This behavior is intended to be general, but the method can be overridden if needed.

Definition at line 358 of file BaseProbe.cpp.

void PV::BaseObject::readParams ( )

inlineinherited

A method that reads the parameters for the group whose name matches the name of the object. It, along with writeParams(), is a wrapper around ioParams, so that readParams and writeParams automatically run through the same parameters in the same order.

Definition at line 62 of file BaseObject.hpp.

double PV::LayerProbe::referenceUpdateTime ( ) const

overrideprotectedvirtualinherited

Implements the referenceUpdateTime method. Returns the last update time of the target layer.

Implements PV::BaseProbe.

Definition at line 81 of file LayerProbe.cpp.

Response::Status PV::BaseProbe::registerData ( Checkpointer * checkpointer )

overridevirtualinherited

Called during HyPerCol::run, during the allocateDataStructures stage. BaseProbe::allocateDataStructures sets up the output stream. Derived classes that override this method should make sure to call this method in their own allocateDataStructures methods.

Reimplemented from PV::CheckpointerDataInterface.

Reimplemented in PV::AdaptiveTimeScaleProbe, PV::BaseConnectionProbe, and PV::StatsProbe.

Definition at line 320 of file BaseProbe.cpp.

void PV::BaseObject::setDataStructuresAllocatedFlag ( )

inlineprotectedinherited

This method sets mDataStructuresAllocatedFlag to true.

Definition at line 175 of file BaseObject.hpp.

void PV::BaseObject::setInitialValuesSetFlag ( )

inlineprotectedinherited

This method sets the flag returned by getInitialValuesSetFlag to true.

Definition at line 180 of file BaseObject.hpp.

void PV::BaseObject::setInitInfoCommunicatedFlag ( )

inlineprotectedinherited

This method sets mInitInfoCommunicatedFlag to true.

Definition at line 170 of file BaseObject.hpp.

void PV::BaseProbe::setNumValues ( int n )

protectedinherited

Sets the numValues member variable (returned by getNumValues()) and reallocates the probeValues member variable to hold numValues double-precision values. If the reallocation fails, the probeValues buffer is left unchanged, errno is set (by a realloc() call), and PV_FAILURE is returned. Otherwise, PV_SUCCESS is returned.

Definition at line 221 of file BaseProbe.cpp.

void PV::BaseObject::writeParams ( )

inlineinherited

A method that writes the parameters for the group whose name matches the name of the object. It, along with readParams(), is a wrapper around ioParams, so that readParams and writeParams automatically run through the same parameters in the same order.

Definition at line 69 of file BaseObject.hpp.

void PV::PointLIFProbe::writeState ( double timevalue )

overrideprotectedvirtual

NOTES:

Only the activity buffer covers the extended frame - this is the frame that includes boundaries.
The other dynamic variables (G_E, G_I, V, Vth) cover the "real" or "restricted" frame.

Reimplemented from PV::PointProbe.

Definition at line 159 of file PointLIFProbe.cpp.

The documentation for this class was generated from the following files:

OpenPV/src/probes/PointLIFProbe.hpp
OpenPV/src/probes/PointLIFProbe.cpp

BaseProbe Parameters

LayerProbe Parameters

Public Member Functions

Protected Member Functions

Protected Attributes

Private Member Functions

Detailed Description

Member Function Documentation