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PV::PointProbe Class Reference
Inheritance diagram for PV::PointProbe:
PV::LayerProbe PV::BaseProbe PV::BaseObject 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)
 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

 PointProbe (const char *probeName, HyPerCol *hc)
 
virtual int allocateDataStructures ()
 
virtual int communicateInitInfo ()
 
double getCoefficient ()
 
char const * getEnergyProbe ()
 
char const * getKeyword () const
 
char const * getName () const
 
int getNumValues ()
 
HyPerColgetParent () const
 
HyPerLayergetTargetLayer ()
 
const char * getTargetName ()
 
double getValue (double timevalue, int index)
 
int getValues (double timevalue, double *valuesVector)
 
int getValues (double timevalue, std::vector< double > *valuesVector)
 
int ioParams (enum ParamsIOFlag ioFlag)
 
virtual bool needUpdate (double time, double dt)
 
virtual int outputState (double timef)
 
virtual int outputStateWrapper (double timef, double dt)
 
virtual int writeTimer (std::ostream &stream)
 

Protected Member Functions

virtual int calcValues (double timevalue)
 
double getLastUpdateTime ()
 
const char * getMessage ()
 
OutStreamgetOutputStream ()
 
bool getTextOutputFlag () const
 
int getValues (double timevalue)
 
double * getValuesBuffer ()
 
int initialize (const char *probeName, HyPerCol *hc)
 
virtual int initMessage (const char *msg)
 
virtual int initNumValues ()
 
virtual int initOutputStream (const char *filename)
 
virtual void ioParam_batchLoc (enum ParamsIOFlag ioFlag)
 
virtual void ioParam_fLoc (enum ParamsIOFlag ioFlag)
 
virtual void ioParam_xLoc (enum ParamsIOFlag ioFlag)
 
virtual void ioParam_yLoc (enum ParamsIOFlag ioFlag)
 
virtual int ioParamsFillGroup (enum ParamsIOFlag ioFlag)
 
bool isWritingToFile () const
 
virtual bool needRecalc (double timevalue)
 
std::ostream & output ()
 
virtual double referenceUpdateTime () const
 
int setName (char const *name)
 
int setNumValues (int n)
 
int setParent (HyPerCol *hc)
 
virtual int writeState (double timef)
 

Protected Attributes

int batchLoc
 
double coefficient
 
char * energyProbe
 
int fLoc
 
char * name
 
OutStreamoutputStream
 
HyPerColparent
 
HyPerLayertargetLayer
 
char * targetName
 
bool triggerFlag
 
HyPerLayertriggerLayer
 
char * triggerLayerName
 
double triggerOffset
 
int xLoc
 
int yLoc
 

Private Member Functions

double getA ()
 
double getV ()
 
int initPointProbe_base ()
 

Detailed Description

Definition at line 15 of file PointProbe.hpp.

Constructor & Destructor Documentation

PV::PointProbe::PointProbe ( const char *  probeName,
HyPerCol hc 
)

Definition at line 23 of file PointProbe.cpp.

Member Function Documentation

int PV::BaseProbe::allocateDataStructures ( )
virtualinherited

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 in PV::KernelProbe.

Definition at line 255 of file BaseProbe.cpp.

int PV::PointProbe::calcValues ( double  timevalue)
protectedvirtual

Implements calcValues for PointProbe. probeValues[0] is the point's membrane potential and probeValues[1] is the point's activity. If the target layer does not have a membrane potential, probeValues[0] is zero. Note that under MPI, only the root process and the process containing the neuron being probed contain the values.

Implements PV::BaseProbe.

Reimplemented in PV::PointLIFProbe.

Definition at line 122 of file PointProbe.cpp.

int PV::PointProbe::communicateInitInfo ( )
virtual

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 76 of file PointProbe.cpp.

double PV::PointProbe::getA ( )
inlineprivate

A convenience method to return probeValues[0] (the activity). Note that it does not call needRecalc().

Definition at line 198 of file PointProbe.cpp.

double PV::BaseProbe::getCoefficient ( )
inlineinherited

Returns the coefficient if the energy probe is set.

Definition at line 101 of file BaseProbe.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 96 of file BaseProbe.hpp.

double PV::BaseProbe::getLastUpdateTime ( )
inlineprotectedinherited

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 289 of file BaseProbe.hpp.

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

Returns a pointer to the message parameter.

Definition at line 244 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 71 of file BaseProbe.hpp.

OutStream* PV::BaseProbe::getOutputStream ( )
inlineprotectedinherited

Returns a pointer to the OutStream used by outputState.

Definition at line 255 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 91 of file BaseProbe.hpp.

bool PV::BaseProbe::getTextOutputFlag ( ) const
inlineprotectedinherited

Returns the value of the textOutputFlag parameter

Definition at line 294 of file BaseProbe.hpp.

double PV::PointProbe::getV ( )
inlineprivate

A convenience method to return probeValues[0] (the membrane potential). Note that it does not call needRecalc().

Definition at line 194 of file PointProbe.cpp.

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 343 of file BaseProbe.cpp.

int 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 330 of file BaseProbe.cpp.

int 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 338 of file BaseProbe.cpp.

int 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 319 of file BaseProbe.cpp.

double* PV::BaseProbe::getValuesBuffer ( )
inlineprotectedinherited

Returns a pointer to the buffer containing the probeValues.

Definition at line 282 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 264 of file BaseProbe.cpp.

int PV::PointProbe::initNumValues ( )
protectedvirtual

Overrides initNumValues() to set numValues to 2 (membrane potential and activity)

Reimplemented from PV::BaseProbe.

Reimplemented in PV::PointLIFProbe.

Definition at line 72 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 107 of file BaseProbe.cpp.

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 300 of file BaseProbe.hpp.

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

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 80 of file LayerProbe.cpp.

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

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.

Definition at line 291 of file BaseProbe.cpp.

std::ostream& PV::BaseProbe::output ( )
inlineprotectedinherited

Returns a reference to the ostream that outputState writes to.

Definition at line 260 of file BaseProbe.hpp.

int PV::PointProbe::outputState ( double  timef)
virtual

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 111 of file PointProbe.cpp.

int 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 357 of file BaseProbe.cpp.

double PV::LayerProbe::referenceUpdateTime ( ) const
protectedvirtualinherited

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

Implements PV::BaseProbe.

Definition at line 84 of file LayerProbe.cpp.

int 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 201 of file BaseProbe.cpp.


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