OpenMS
LayerDataIdent.h
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1 // Copyright (c) 2002-present, The OpenMS Team -- EKU Tuebingen, ETH Zurich, and FU Berlin
2 // SPDX-License-Identifier: BSD-3-Clause
3 //
4 // --------------------------------------------------------------------------
5 // $Maintainer: Chris Bielow $
6 // $Authors: Chris Bielow $
7 // --------------------------------------------------------------------------
8 
9 #pragma once
10 
13 
14 namespace OpenMS
15 {
16 
22  class OPENMS_GUI_DLLAPI LayerDataIdent : public LayerDataBase, public IPeptideIds
23  {
24  public:
27  LayerDataBase(LayerDataBase::DT_IDENT){};
29  LayerDataIdent(const LayerDataIdent& ld) = delete;
31  LayerDataIdent& operator=(const LayerDataIdent& ld) = delete;
32 
33  std::unique_ptr<Painter2DBase> getPainter2D() const override;
34 
35  std::unique_ptr<LayerData1DBase> to1DLayer() const override
36  {
37  throw Exception::NotImplemented(__FILE__, __LINE__, OPENMS_PRETTY_FUNCTION);
38  }
39 
40  std::unique_ptr<LayerStoreData> storeVisibleData(const RangeAllType& visible_range, const DataFilters& layer_filters) const override;
41 
42  std::unique_ptr<LayerStoreData> storeFullData() const override;
43 
44  ProjectionData getProjection(const DIM_UNIT unit_x, const DIM_UNIT unit_y, const RangeAllType& area) const override;
45 
46  PeakIndex findHighestDataPoint(const RangeAllType& /*area*/) const override
47  { // todo: not implemented
48  return PeakIndex();
49  }
50 
51  PointXYType peakIndexToXY(const PeakIndex& peak, const DimMapper<2>& mapper) const override;
52 
53 
54  void updateRanges() override
55  {
56  // nothing to do...
57  }
58 
59  RangeAllType getRange() const override
60  {
61  RangeAllType r;
62  for (const PeptideIdentification& pep : peptides_)
63  {
64  r.extendRT(pep.getRT());
65  r.extendMZ(pep.getMZ());
66  }
67  return r;
68  }
69 
70  std::unique_ptr<LayerStatistics> getStats() const override;
71 
72  virtual const PepIds& getPeptideIds() const override
73  {
74  return peptides_;
75  }
76  virtual PepIds& getPeptideIds() override
77  {
78  return peptides_;
79  }
80 
81  virtual void setPeptideIds(const PepIds& ids) override
82  {
83  peptides_ = ids;
84  }
85  virtual void setPeptideIds(PepIds&& ids) override
86  {
87  peptides_ = std::move(ids);
88  }
89 
90  private:
92  std::vector<PeptideIdentification> peptides_;
93  };
94 
95 }// namespace OpenMS
DataFilter array providing some convenience functions.
Definition: DataFilters.h:27
Not implemented exception.
Definition: Exception.h:399
Abstract base class which defines an interface for PeptideIdentifications.
Definition: IPeptideIds.h:23
std::vector< PeptideIdentification > PepIds
Definition: IPeptideIds.h:25
Class that stores the data for one layer.
Definition: LayerDataBase.h:169
Class that stores the data for one layer of type PeptideIdentifications.
Definition: LayerDataIdent.h:23
LayerDataIdent()
Default constructor.
Definition: LayerDataIdent.h:26
std::unique_ptr< LayerStatistics > getStats() const override
Compute layer statistics (via visitor)
virtual void setPeptideIds(const PepIds &ids) override
overwrite the peptide IDs for this layer
Definition: LayerDataIdent.h:81
virtual void setPeptideIds(PepIds &&ids) override
Definition: LayerDataIdent.h:85
std::unique_ptr< LayerStoreData > storeFullData() const override
Returns a visitor which contains the the full data of the layer and can write the data to disk in the...
std::unique_ptr< LayerData1DBase > to1DLayer() const override
Create a shallow copy (i.e. shared experimental data using shared_ptr) of the current layer,...
Definition: LayerDataIdent.h:35
PointXYType peakIndexToXY(const PeakIndex &peak, const DimMapper< 2 > &mapper) const override
Convert a PeakIndex to a XY coordinate (via mapper).
LayerDataIdent & operator=(const LayerDataIdent &ld)=delete
no assignment operator (should not be needed)
LayerDataIdent(const LayerDataIdent &ld)=delete
no Copy-ctor (should not be needed)
ProjectionData getProjection(const DIM_UNIT unit_x, const DIM_UNIT unit_y, const RangeAllType &area) const override
RangeAllType getRange() const override
Definition: LayerDataIdent.h:59
virtual const PepIds & getPeptideIds() const override
get the peptide IDs for this layer
Definition: LayerDataIdent.h:72
std::unique_ptr< LayerStoreData > storeVisibleData(const RangeAllType &visible_range, const DataFilters &layer_filters) const override
Returns a visitor which contains the current visible data and can write the data to disk.
PeakIndex findHighestDataPoint(const RangeAllType &) const override
Find the datapoint with the highest intensity within the given range and return a proxy to that datap...
Definition: LayerDataIdent.h:46
virtual PepIds & getPeptideIds() override
Definition: LayerDataIdent.h:76
std::vector< PeptideIdentification > peptides_
peptide identifications
Definition: LayerDataIdent.h:92
std::unique_ptr< Painter2DBase > getPainter2D() const override
Obtain a painter which can draw the layer on a 2D canvas.
void updateRanges() override
Update ranges of the underlying data.
Definition: LayerDataIdent.h:54
Represents the peptide hits for a spectrum.
Definition: PeptideIdentification.h:39
Main OpenMS namespace.
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/ISpectrumAccess.h:19
DIM_UNIT
Definition: CommonEnums.h:20
Result of computing a projection on X and Y axis in a 2D Canvas; see LayerDataBase::getProjection()
Definition: LayerDataBase.h:51
Index of a peak or feature.
Definition: PeakIndex.h:25