OpenMS  3.0.0
SqrtMower.h
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31 // $Maintainer: Mathias Walzer $
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34 //
35 #pragma once
36 
41 
42 #include <cmath>
43 
44 namespace OpenMS
45 {
51  class OPENMS_DLLAPI SqrtMower :
52  public DefaultParamHandler
53  {
54 public:
55 
56  // @name Constructors and Destructors
57  // @{
59  SqrtMower();
61  ~SqrtMower() override;
62 
64  SqrtMower(const SqrtMower & source);
66  SqrtMower & operator=(const SqrtMower & source);
67  // @}
68 
70  template <typename SpectrumType>
71  void filterSpectrum(SpectrumType & spectrum)
72  {
73  bool warning = false;
74  for (typename SpectrumType::Iterator it = spectrum.begin(); it != spectrum.end(); ++it)
75  {
76  double intens = it->getIntensity();
77  if (intens < 0)
78  {
79  intens = 0;
80  warning = true;
81  }
82  it->setIntensity(std::sqrt(intens));
83  }
84  if (warning)
85  {
86  std::cerr << "Warning negative intensities were set to zero" << std::endl;
87  }
88  return;
89  }
90 
91  void filterPeakSpectrum(PeakSpectrum & spectrum);
92 
93  void filterPeakMap(PeakMap & exp);
94 
95  //TODO reimplement DefaultParamHandler::updateMembers_()
96 
97  // @}
98 
99  };
100 
101 }
102 
DefaultParamHandler.h
OpenMS::SqrtMower
Scales the intensity of peaks to the sqrt.
Definition: SqrtMower.h:51
OpenMS::MSExperiment
In-Memory representation of a mass spectrometry run.
Definition: MSExperiment.h:70
OpenMS::DefaultParamHandler
A base class for all classes handling default parameters.
Definition: DefaultParamHandler.h:92
OpenMS
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47
MSExperiment.h
OpenMS::MSSpectrum::Iterator
ContainerType::iterator Iterator
Mutable iterator.
Definition: MSSpectrum.h:128
OpenMS::MSSpectrum
The representation of a 1D spectrum.
Definition: MSSpectrum.h:66
StandardTypes.h
OpenMS::SqrtMower::filterSpectrum
void filterSpectrum(SpectrumType &spectrum)
Definition: SqrtMower.h:71
MSSpectrum.h