pappso::TraceDetectionZivy Class Reference

#include <tracedetectionzivy.h>

Inheritance diagram for pappso::TraceDetectionZivy:

Public Member Functions
	TraceDetectionZivy (unsigned int smoothing_half_window_length, unsigned int minmax_half_window_length, unsigned int maxmin_half_window_length, pappso_double detection_threshold_on_minmax, pappso_double detection_threshold_on_maxmin)
virtual	~TraceDetectionZivy ()
void	setFilterMorphoMean (const FilterMorphoMean &smooth)
void	setFilterMorphoMinMax (const FilterMorphoMinMax &m_minMax)
void	setFilterMorphoMaxMin (const FilterMorphoMaxMin &maxMin)
void	setDetectionThresholdOnMinmax (double detectionThresholdOnMinMax)
void	setDetectionThresholdOnMaxmin (double detectionThresholdOnMaxMin)
unsigned int	getSmoothingHalfEdgeWindows () const
unsigned int	getMaxMinHalfEdgeWindows () const
unsigned int	getMinMaxHalfEdgeWindows () const
pappso_double	getDetectionThresholdOnMinmax () const
pappso_double	getDetectionThresholdOnMaxmin () const
void	detect (const Trace &xic, TraceDetectionSinkInterface &sink) const override

Private Attributes
FilterMorphoMean	m_smooth
FilterMorphoMinMax	m_minMax
FilterMorphoMaxMin	m_maxMin
pappso_double	m_detectionThresholdOnMinMax
pappso_double	m_detectionThresholdOnMaxMin

Detailed Description

Definition at line 55 of file tracedetectionzivy.h.

Constructor & Destructor Documentation

TraceDetectionZivy()

pappso::TraceDetectionZivy::TraceDetectionZivy	(	unsigned int	smoothing_half_window_length,
		unsigned int	minmax_half_window_length,
		unsigned int	maxmin_half_window_length,
		pappso_double	detection_threshold_on_minmax,
		pappso_double	detection_threshold_on_maxmin
	)

Definition at line 52 of file tracedetectionzivy.cpp.

{
  m_minMax = minMax;
}
void
TraceDetectionZivy::setFilterMorphoMaxMin(const FilterMorphoMaxMin &maxMin)
{
  m_maxMin = maxMin;
}
 

~TraceDetectionZivy()

pappso::TraceDetectionZivy::~TraceDetectionZivy ( )

virtual

Definition at line 65 of file tracedetectionzivy.cpp.

{

References m_detectionThresholdOnMinMax.

Member Function Documentation

detect()

void pappso::TraceDetectionZivy::detect ( const Trace &  xic, TraceDetectionSinkInterface &  sink  ) const

overridevirtual

Implements pappso::TraceDetectionInterface.

Definition at line 126 of file tracedetectionzivy.cpp.

    {
      m_minMax.filter(xic_minmax);
      m_maxMin.filter(xic_maxmin);
    }
  catch(const ExceptionOutOfRange &e)
    {
      throw ExceptionNotPossible(
        QObject::tr("The original XIC is too small to detect peaks (%1) :\n%2")
          .arg(xic.size())
          .arg(e.qwhat()));
    }
  qDebug() << __FILE__ << " " << __FUNCTION__ << " " << __LINE__;
  std::vector<DataPoint>::const_iterator previous_rt = xic_minmax.begin();
  std::vector<DataPoint>::const_iterator current_rt  = (previous_rt + 1);
  std::vector<DataPoint>::const_iterator last_rt     = (xic_minmax.end() - 1);
 
  std::vector<DataPoint>::const_iterator current_rt_on_maxmin =
    (xic_maxmin.begin() + 1);
 
  std::vector<DataPoint>::const_iterator xic_position = xic.begin();
  qDebug() << __FILE__ << " " << __FUNCTION__ << " " << __LINE__;
  while(current_rt != last_rt)
    // for (unsigned int i = 1, count = 0; i < xic_minmax.size() - 1; )
    {
      // conditions to have a peak
      if((previous_rt->y < current_rt->y) &&
         (current_rt->y > m_detectionThresholdOnMinMax) &&
         (current_rt_on_maxmin->y > m_detectionThresholdOnMaxMin))
        {
          // here we test the last condition to have a peak
 
          // no peak case
          if(current_rt->y < (current_rt + 1)->y)
            {
              //++i;
              previous_rt = current_rt;
              current_rt++;
              current_rt_on_maxmin++;
            }
          // there is a peak here ! case
          else if(current_rt->y > (current_rt + 1)->y)
            {
              // peak.setMaxXicElement(*current_rt);
 
              // find left boundary
              std::vector<DataPoint>::const_iterator it_left =
                moveLowerYLeftDataPoint(xic_minmax, current_rt);
              // walk back
              it_left = moveLowerYRigthDataPoint(xic_minmax, it_left);
              // peak.setLeftBoundary(*it_left);
 
              // find right boundary
              std::vector<DataPoint>::const_iterator it_right =
                moveLowerYRigthDataPoint(xic_minmax, current_rt);
              // walk back
              it_right = moveLowerYLeftDataPoint(xic_minmax, it_right);
              // peak.setRightBoundary(*it_right);
 
              // integrate peak surface :
              auto it =
                findFirstEqualOrGreaterX(xic_position, xic.end(), it_left->x);
              xic_position =
                findFirstEqualOrGreaterX(it, xic.end(), it_right->x) + 1;
              // peak.setArea(areaTrace(it, xic_position));
 
              // find the maximum :
              // peak.setMaxXicElement(*maxYDataPoint(it, xic_position));
 
              // areaTrace()
              TracePeak peak(it, xic_position);
              sink.setTracePeak(peak);
              // }
              //++i;
              previous_rt = current_rt;
              current_rt++;
              current_rt_on_maxmin++;
            }
          // equality case, skipping equal points
          else
            {
              // while (v_minmax[i] == v_minmax[i + 1]) {
              //++i;
              current_rt++;
              current_rt_on_maxmin++;
 
              //++count;
            }
        }
      // no chance to have a peak at all, continue looping
      else
        {
          //++i;
          previous_rt = current_rt;
          current_rt++;
          current_rt_on_maxmin++;
        }
    } // end loop for peaks
  qDebug() << __FILE__ << " " << __FUNCTION__ << " " << __LINE__;
}
} // namespace pappso

References pappso::FilterMorphoMinMax::filter(), pappso::FilterMorphoMaxMin::filter(), m_maxMin, and m_minMax.

getDetectionThresholdOnMaxmin()

pappso_double pappso::TraceDetectionZivy::getDetectionThresholdOnMaxmin

(

)

const

Definition at line 119 of file tracedetectionzivy.cpp.

    {

getDetectionThresholdOnMinmax()

pappso_double pappso::TraceDetectionZivy::getDetectionThresholdOnMinmax

(

)

const

Definition at line 114 of file tracedetectionzivy.cpp.

    {

getMaxMinHalfEdgeWindows()

unsigned int pappso::TraceDetectionZivy::getMaxMinHalfEdgeWindows

(

)

const

Definition at line 103 of file tracedetectionzivy.cpp.

{

getMinMaxHalfEdgeWindows()

unsigned int pappso::TraceDetectionZivy::getMinMaxHalfEdgeWindows

(

)

const

Definition at line 109 of file tracedetectionzivy.cpp.

    {

getSmoothingHalfEdgeWindows()

unsigned int pappso::TraceDetectionZivy::getSmoothingHalfEdgeWindows

(

)

const

Definition at line 98 of file tracedetectionzivy.cpp.

{
  return m_detectionThresholdOnMaxMin;

References m_detectionThresholdOnMaxMin.

setDetectionThresholdOnMaxmin()

void pappso::TraceDetectionZivy::setDetectionThresholdOnMaxmin

(

double

detectionThresholdOnMaxMin

)

Definition at line 92 of file tracedetectionzivy.cpp.

{
  return m_detectionThresholdOnMinMax;

setDetectionThresholdOnMinmax()

void pappso::TraceDetectionZivy::setDetectionThresholdOnMinmax

(

double

detectionThresholdOnMinMax

)

Definition at line 86 of file tracedetectionzivy.cpp.

{

setFilterMorphoMaxMin()

void pappso::TraceDetectionZivy::setFilterMorphoMaxMin

(

const FilterMorphoMaxMin &

maxMin

)

Definition at line 80 of file tracedetectionzivy.cpp.

{

setFilterMorphoMean()

void pappso::TraceDetectionZivy::setFilterMorphoMean

(

const FilterMorphoMean &

smooth

)

Definition at line 70 of file tracedetectionzivy.cpp.

{

setFilterMorphoMinMax()

void pappso::TraceDetectionZivy::setFilterMorphoMinMax

(

const FilterMorphoMinMax &

m_minMax

)

Definition at line 75 of file tracedetectionzivy.cpp.

{

Member Data Documentation

m_detectionThresholdOnMaxMin

pappso_double pappso::TraceDetectionZivy::m_detectionThresholdOnMaxMin

private

Definition at line 82 of file tracedetectionzivy.h.

Referenced by getSmoothingHalfEdgeWindows().

m_detectionThresholdOnMinMax

pappso_double pappso::TraceDetectionZivy::m_detectionThresholdOnMinMax

private

Definition at line 81 of file tracedetectionzivy.h.

Referenced by ~TraceDetectionZivy().

m_maxMin

FilterMorphoMaxMin pappso::TraceDetectionZivy::m_maxMin

private

Definition at line 80 of file tracedetectionzivy.h.

Referenced by detect().

m_minMax

FilterMorphoMinMax pappso::TraceDetectionZivy::m_minMax

private

Definition at line 79 of file tracedetectionzivy.h.

Referenced by detect().

m_smooth

FilterMorphoMean pappso::TraceDetectionZivy::m_smooth

private

Definition at line 78 of file tracedetectionzivy.h.

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

• pappsomspp/processing/detection/tracedetectionzivy.h
• pappsomspp/processing/detection/tracedetectionzivy.cpp