#include <calibefield.h>

Inheritance diagram for CalibEField:

Collaboration diagram for CalibEField:

Public Member Functions
	CalibEField (void)

	~CalibEField (void)

virtual int	main (void)

void	saveData (const MapD &intensities, const base::LinearAttenuate *latt)

void	plotGain (const MapD &gainamplitudes, double targetintensity)

void	plotIntensities (const MapD &intensities, double targetintensity, double maxx)

int	analyze (const InData &eodtrace, double duration, double beatfrequency, bool usecontrast, double mincontrast, double maxcontrast, double minamplitude, double maxamplitude, double intensity, bool fish, double &amplitude)

Public Member Functions inherited from ConfigDialog
	ConfigDialog (const string &configident="", int configgroup=0, const string &name="", const string &author="", const string &version="", const string &date=__DATE__)

virtual	~ConfigDialog (void)

string	name (void) const

virtual void	setName (const string &name)

string	author (void) const

virtual void	setAuthor (const string &author)

string	version (void) const

virtual void	setVersion (const string &version)

string	date (void) const

virtual void	setDate (const string &date)

virtual OptWidget *	dialogOptions (OptDialog od, string tabhotkeys=0)

virtual void	dialogButtons (OptDialog *od)

virtual void	dialogEmptyMessage (OptDialog *od)

int	dialogSelectMask (void) const

void	setDialogSelectMask (int mask)

void	addDialogSelectMask (int mask)

int	dialogReadOnlyMask (void) const

void	setDialogReadOnlyMask (int mask)

void	addDialogReadOnlyMask (int mask)

int	dialogStyle (void) const

void	setDialogStyle (int style)

void	addDialogStyle (int style)

string	dialogCaption (void) const

void	setDialogCaption (const string &caption)

bool	dialogHeader (void) const

void	setDialogHeader (bool d)

string	headerBackgroundColor (void) const

void	setHeaderBackgroundColor (const string &color)

string	headerForegroundColor (void) const

void	setHeaderForegroundColor (const string &color)

string	headerImageFile (void) const

void	setHeaderImageFile (const string &file)

virtual void	dialogHeaderWidget (OptDialog *od)

bool	dialogHelp (void) const

void	setDialogHelp (bool d)

string	helpCaption (void) const

void	setHelpCaption (const string &caption)

string	helpPath (int inx=0) const

int	helpPathes (void) const

void	clearHelpPathes (void)

void	setHelpPath (const string &path)

void	addHelpPath (const string &path)

virtual string	helpFileName (void) const

bool	dialogOpen (void) const

bool	helpOpen (void) const

QWidget *	mainWidget (void)

virtual void	setMainWidget (QWidget *widget)

void	lock () const

void	unlock () const

bool	tryLock (int timeout=1)

QMutex *	mutex (void)

Public Member Functions inherited from ConfigClass
	ConfigClass (const string &ident, int group=0, int mode=0xffff, int selectmask=0)

	ConfigClass (const ConfigClass &C)

virtual	~ConfigClass (void)

const string &	configIdent (void) const

void	setConfigIdent (const string &ident)

int	configGroup (void) const

void	setConfigGroup (int group)

int	configMode (void) const

void	setConfigMode (int mode)

void	addConfigMode (int mode)

void	delConfigMode (int mode)

int	configSelectMask (void) const

void	setConfigSelectMask (int mask)

void	addConfig (void)

void	readConfig (void)

virtual void	readConfig (StrQueue &sq)

virtual void	saveConfig (ofstream &str)

virtual int	configSize (void) const

virtual void	config (void)

virtual void	preConfig (void)

Public Member Functions inherited from Traces
	Traces (void)

Public Member Functions inherited from StandardTraces
	StandardTraces (void)

Public Member Functions inherited from EODTools
	EODTools (void)

double	eodThreshold (const InData &data, double tbegin, double tend, double contrast=0.2)

void	eodPeaks (const InData &data, double tbegin, double tend, double threshold, EventData &peaks)

void	eodTroughs (const InData &data, double tbegin, double tend, double threshold, EventData &troughs)

void	eodPeaksTroughs (const InData &data, double tbegin, double tend, double threshold, EventData &peaks, EventData &troughs)

double	meanPeaks (const InData &data, double tbegin, double tend, double threshold)

double	meanTroughs (const InData &data, double tbegin, double tend, double threshold)

double	eodAmplitude (const InData &data, double tbegin, double tend)

void	beatAmplitudes (const InData &eodd, double tbegin, double tend, double period, double contrast, double &uppermean, double &upperampl, double &lowermean, double &lowerampl)

double	beatAmplitude (const InData &eodd, double tbegin, double tend, double period, double contrast=0.2)

double	beatContrast (const InData &eodd, double tbegin, double tend, double period, double contrast=0.2)

Additional Inherited Members
Public Types inherited from ConfigClass
enum	Action

Public Slots inherited from ConfigDialog
virtual void	dialog (void)

virtual void	help (void)

virtual void	notifyDialog (const Options &opt)

Signals inherited from ConfigDialog
void	dialogAccepted (void)

void	dialogAction (int r)

void	dialogClosed (int r)

Static Public Member Functions inherited from ConfigClass
static void	setConfigureClasses (ConfigureClasses *cfg)

Static Public Member Functions inherited from Traces
static void	initialize (const RELACSPlugin *rp, const InList &data, const EventList &events)

Protected Slots inherited from ConfigDialog
void	notificationFromDialog (const Parameter &p)

virtual void	dClosed (int r)

virtual void	hClosed (int r)

Protected Member Functions inherited from ConfigDialog
void	setDialogOpen (bool open=true)

void	setHelpOpen (bool open=true)

Static Protected Member Functions inherited from StandardTraces
static void	clearIndices (int *traceindices, int n=-1)

static void	initStandardTraces (const InList &data, int ntraces, int traceindices, const string *names, string &namelist, bool alpha=false)

static void	initStandardEventTraces (const InList &data, const EventList &events, int ntraces, int traceindices, int eventindices, const string tracenames, const string *eventnames, string &tracenamelist, string &eventnamelist, bool alpha=false)

static void	initStandardOutputs (const RELACSPlugin rp, int ntraces, int traceindices, const string names, string &namelist, bool alpha=false)

Protected Attributes inherited from ConfigDialog
Options	DialogOptions

Static Protected Attributes inherited from Traces
static int	EODTrace = -1

static int	EODEvents = -1

static int	ChirpEvents = -1

static int	LocalEODTraces = 0

static int	LocalEODTrace [MaxTraces] = { -1, -1, -1, -1 }

static int	LocalEODEvents [MaxTraces] = { -1, -1, -1, -1 }

static int	LocalChirpEvents [MaxTraces] = { -1, -1, -1, -1 }

static int	LocalBeatPeakEvents [MaxTraces] = { -1, -1, -1, -1 }

static int	LocalBeatTroughEvents [MaxTraces] = { -1, -1, -1, -1 }

static int	FishEODTanks = 0

static int	FishEODTraces [MaxTraces] = { 0, 0, 0, 0 }

static int	FishEODTrace [MaxTraces][MaxTraces] = { { -1, -1, -1, -1 }, { -1, -1, -1, -1 } }

static int	FishEODEvents [MaxTraces][MaxTraces] = { { -1, -1, -1, -1 }, { -1, -1, -1, -1 } }

static int	FishChirpEvents [MaxTraces][MaxTraces] = { { -1, -1, -1, -1 }, { -1, -1, -1, -1 } }

static int	GlobalEField = -1

static int	GlobalAMEField = -1

static int	LocalEFields = 0

static int	LocalEField [MaxTraces] = { -1, -1, -1, -1 }

static int	LocalAMEFields = 0

static int	LocalAMEField [MaxTraces] = { -1, -1, -1, -1 }

static int	FishEFields = 0

static int	FishEField [MaxTraces] = { -1, -1, -1, -1 }

static int	EFields = 0

static int	EField [2 *MaxTraces] = { -1, -1, -1, -1 }

static int	GlobalEFieldTrace = -1

static int	GlobalEFieldEvents = -1

static int	LocalEFieldTraces = 0

static int	LocalEFieldTrace [MaxTraces] = { -1, -1, -1, -1 }

static int	LocalEFieldEvents [MaxTraces] = { -1, -1, -1, -1 }

static int	FishEFieldTraces = 0

static int	FishEFieldTrace [MaxTraces] = { -1, -1, -1, -1 }

static int	FishEFieldEvents [MaxTraces] = { -1, -1, -1, -1 }

Static Protected Attributes inherited from StandardTraces
static const int	MaxTraces

Detailed Description

[RePro] Calibrates an attenuator for electric field stimuli.

Author: Jan Benda

Version: 2.2 (Nov 30, 2013)

Note: Intensity for attenuation is interpreted as 0.5 * p-p amplitude; Calibration non-sine EODs has an offset!

Options

reset=false: Reset calibration? (boolean)
resetval=0.1: Reset gain factor to (number)
am=false: Calibrate amplitude modulation? (boolean)
beatfreq=20Hz: Beat frequency to be used when fish EOD present (number)
frequency=600Hz: Stimulus frequency to be used when no fish EOD is present (number)
duration=400ms: Duration of stimulus (number)
pause=0ms: Pause (number)
amplsel=contrast: Calibrate for (string)
targetcontrast=20%: Target contrast to be tested first (number)
mincontrast=10%: Minimum contrast (number)
maxcontrast=25%: Maximum contrast (number)
targetamplitude=1mV/cm: Target contrast to be tested first (number)
minamplitude=0.5mV/cm: Minimum amplitude (number)
maxamplitude=2mV/cm: Maximum amplitude (number)
numintensities=10: Number of intensities (amplitudes) to be measured (integer)

Files

calibrate.dat : the calibration data (measured versus requested stimulus intensity).

Plots: The plot shows the measured versus the requested stimulus intensity (red circles). The yellow line is a fit of a straight line to the data. In case of a successful calibration this line should coincide with the blue line. The horizontal white line is the target intensity.

Requirements

An EOD recording (GlobalEOD, LocalEOD, FishEOD), that is to be calibrated, and corresponding events.

Constructor & Destructor Documentation

CalibEField ( void )

~CalibEField ( void )

Member Function Documentation

int main ( void )

virtual

Implements RePro.

References CalibEField::analyze(), OutData::back(), ceil(), Plot::clear(), Map< T >::clear(), EventData::count(), EODTools::eodAmplitude(), Traces::EODEvents, Traces::EODTrace, DaqError::failed(), Traces::FishEODEvents, Traces::FishEODTrace, EventData::frequency(), gain(), Traces::GlobalAMEField, Traces::GlobalEField, Traces::GlobalEFieldEvents, Traces::GlobalEFieldTrace, OutData::intensity(), Traces::LocalEODEvents, Traces::LocalEODTrace, Plot::lock(), max(), InData::maxAbs(), InData::maxValue(), CalibEField::plotGain(), CalibEField::plotIntensities(), Map< T >::push(), EventData::rangeBack(), Map< T >::reserve(), Plot::resetRanges(), CalibEField::saveData(), OutData::setIntensity(), OutData::setTrace(), Plot::setXLabel(), Plot::setYLabel(), OutData::sineWave(), Map< T >::size(), sqrt(), InData::unit(), Plot::unlock(), Map< T >::x(), and Map< T >::y().

void saveData	(	const MapD &	intensities,
		const base::LinearAttenuate *	latt
	)

References TableKey::addNumber(), Map< T >::empty(), TableKey::save(), TableKey::saveKey(), Map< T >::size(), Map< T >::x(), and Map< T >::y().

Referenced by CalibEField::main().

void plotGain	(	const MapD &	gainamplitudes,
		double	targetintensity
	)

Plot data.

References Plot::clear(), Plot::draw(), Plot::lock(), max(), Plot::plot(), Plot::plotHLine(), Plot::setXRange(), Plot::setYRange(), Plot::unlock(), Map< T >::y(), Plot::zoomedXRange(), and Plot::zoomedYRange().

Referenced by CalibEField::main().

void plotIntensities	(	const MapD &	intensities,
		double	targetintensity,
		double	maxx
	)

References Plot::clear(), Plot::draw(), Plot::lock(), Plot::plot(), Plot::plotHLine(), Plot::plotLine(), Plot::setXLabel(), Plot::setXRange(), Plot::setYRange(), Plot::unlock(), Plot::zoomedXRange(), and Plot::zoomedYRange().

Referenced by CalibEField::main().

int analyze	(	const InData &	eodtrace,
		double	duration,
		double	beatfrequency,
		bool	usecontrast,
		double	mincontrast,
		double	maxcontrast,
		double	minamplitude,
		double	maxamplitude,
		double	intensity,
		bool	fish,
		double &	amplitude
	)

Analyze data.

References EODTools::beatAmplitudes(), EODTools::eodAmplitude(), and InData::maxValue().

Referenced by CalibEField::main().

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

Public Member Functions

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation