pappso::FilterMzExclusion Class Reference

#include <filterexclusionmz.h>

Inheritance diagram for pappso::FilterMzExclusion:

Public Member Functions
	FilterMzExclusion (PrecisionPtr precision_ptr)
	FilterMzExclusion (const QString &strBuildParams)
	FilterMzExclusion (const FilterMzExclusion &other)
virtual	~FilterMzExclusion ()
QString	name () const override
QString	toString () const override
Trace &	filter (Trace &data_points) const override
	get all the datapoints and remove different isotope and add their intensity and change to charge = 1 when the charge is known
Public Member Functions inherited from pappso::FilterNameInterface
virtual	~FilterNameInterface ()
Public Member Functions inherited from pappso::FilterInterface
virtual	~FilterInterface ()

Private Member Functions
void	buildFilterFromString (const QString &strBuildParams) override
	build this filter using a string
Trace	removeTraceInExclusionMargin (Trace &points) const

Private Attributes
PrecisionPtr	m_exclusionPrecision

Detailed Description

Definition at line 36 of file filterexclusionmz.h.

Constructor & Destructor Documentation

FilterMzExclusion() [1/3]

FilterMzExclusion::FilterMzExclusion

(

pappso::PrecisionPtr

precision_ptr

)

Default constructor

Definition at line 39 of file filterexclusionmz.cpp.

  : m_exclusionPrecision(precision_ptr)
{
}

References m_exclusionPrecision.

FilterMzExclusion() [2/3]

FilterMzExclusion::FilterMzExclusion

(

const QString &

strBuildParams

)

Parameters

strBuildParams

string to build the filter "mzExclusion|0.02dalton"

Definition at line 34 of file filterexclusionmz.cpp.

{
  buildFilterFromString(strBuildParams);
}

References buildFilterFromString().

FilterMzExclusion() [3/3]

FilterMzExclusion::FilterMzExclusion

(

const FilterMzExclusion &

other

)

Copy constructor

Parameters

other

TODO

Definition at line 44 of file filterexclusionmz.cpp.

  : m_exclusionPrecision(other.m_exclusionPrecision)
{
}

References m_exclusionPrecision.

~FilterMzExclusion()

FilterMzExclusion::~FilterMzExclusion ( )

virtual

Destructor

Definition at line 49 of file filterexclusionmz.cpp.

{
}

Member Function Documentation

buildFilterFromString()

void pappso::FilterMzExclusion::buildFilterFromString ( const QString & strBuildParams )

overrideprivatevirtual

build this filter using a string

Parameters

strBuildParams

a string coding the filter and its parameters "filterName|param1;param2;param3"

Implements pappso::FilterNameInterface.

Definition at line 54 of file filterexclusionmz.cpp.

{
  qDebug();
  if(strBuildParams.startsWith("mzExclusion|"))
    {
      QStringList params = strBuildParams.split("|").back().split(";", Qt::SkipEmptyParts);
 
      QString precision    = params.at(0);
      m_exclusionPrecision = PrecisionFactory::fromString(
        precision.replace("dalton", " dalton").replace("ppm", " ppm").replace("res", " res"));
    }
  else
    {
      throw pappso::ExceptionNotRecognized(
        QString("building mzExclusion from string %1 is not possible").arg(strBuildParams));
    }
  qDebug();
}

References pappso::PrecisionFactory::fromString(), and m_exclusionPrecision.

Referenced by FilterMzExclusion().

filter()

pappso::Trace & pappso::FilterMzExclusion::filter ( pappso::Trace & data_points ) const

overridevirtual

get all the datapoints and remove different isotope and add their intensity and change to charge = 1 when the charge is known

Returns

a list of datapoint

Implements pappso::FilterInterface.

Definition at line 74 of file filterexclusionmz.cpp.

{
  qDebug();
  qDebug() << "before" << data_points.size();
  data_points.sortY(Enums::SortOrder::descending);
 
  Trace new_trace = removeTraceInExclusionMargin(data_points);
  new_trace.sortX();
  data_points = std::move(new_trace);
  qDebug() << "after" << data_points.size();
  qDebug();
  return data_points;
}

References pappso::Enums::descending, removeTraceInExclusionMargin(), pappso::Trace::sortX(), and pappso::Trace::sortY().

name()

QString pappso::FilterMzExclusion::name ( ) const

overridevirtual

Implements pappso::FilterNameInterface.

Definition at line 89 of file filterexclusionmz.cpp.

{
  return "mzExclusion";
}

Referenced by toString().

removeTraceInExclusionMargin()

pappso::Trace pappso::FilterMzExclusion::removeTraceInExclusionMargin ( pappso::Trace & points ) const

private

Definition at line 106 of file filterexclusionmz.cpp.

{
  Trace new_trace;
  std::vector<MzRange> excluded_ranges;
 
  for(auto &data_point : points)
    {
      auto exclude_index = excluded_ranges.begin(), end = excluded_ranges.end();
 
      exclude_index = std::find_if(exclude_index, end, [&data_point](MzRange range) {
        return (data_point.x >= range.lower() && data_point.x <= range.upper());
      });
      if(exclude_index == end)
        {
          new_trace.push_back(data_point);
          MzRange new_range(data_point.x, m_exclusionPrecision);
          excluded_ranges.push_back(new_range);
        }
    }
 
  return new_trace;
}

References pappso::MzRange::lower(), m_exclusionPrecision, and pappso::MzRange::upper().

Referenced by filter().

toString()

QString pappso::FilterMzExclusion::toString ( ) const

overridevirtual

Implements pappso::FilterNameInterface.

Definition at line 96 of file filterexclusionmz.cpp.

{
  QString strCode = QString("%1|%2").arg(name()).arg(m_exclusionPrecision->toString());
 
  strCode.replace(" ", "");
 
  return strCode;
}

References m_exclusionPrecision, and name().

Member Data Documentation

m_exclusionPrecision

PrecisionPtr pappso::FilterMzExclusion::m_exclusionPrecision

private

Definition at line 79 of file filterexclusionmz.h.

Referenced by FilterMzExclusion(), FilterMzExclusion(), buildFilterFromString(), removeTraceInExclusionMargin(), and toString().

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

• pappsomspp/core/processing/filters/filterexclusionmz.h
• pappsomspp/core/processing/filters/filterexclusionmz.cpp