Class that stores the data for one layer of type IonMobility. More...
#include <OpenMS/VISUAL/LayerDataIonMobility.h>
Public Member Functions | |
LayerDataIonMobility () | |
Default constructor. More... | |
LayerDataIonMobility (const LayerDataIonMobility &ld) | |
Copy-ctor. More... | |
LayerDataIonMobility & | operator= (const LayerDataIonMobility &ld)=delete |
no assignment operator (should not be needed) More... | |
std::unique_ptr< Painter2DBase > | getPainter2D () const override |
Obtain a painter which can draw the layer on a 2D canvas. More... | |
std::unique_ptr< LayerData1DBase > | to1DLayer () const override |
Create a shallow copy (i.e. shared experimental data using shared_ptr) of the current layer, and make it 1D (i.e. support showing a single spec/chrom etc) More... | |
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. More... | |
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 appropriate format (e.g. mzML) More... | |
ProjectionData | getProjection (const DIM_UNIT unit_x, const DIM_UNIT unit_y, const RangeAllType &area) const override |
PeakIndex | findHighestDataPoint (const RangeAllType &) const override |
Find the datapoint with the highest intensity within the given range and return a proxy to that datapoint. More... | |
void | updateRanges () override |
Update ranges of the underlying data. More... | |
RangeAllType | getRange () const override |
void | setMobilityData (const Mobilogram &mobilogram) |
const Mobilogram & | getMobilogram (Size index) const |
PointXYType | peakIndexToXY (const PeakIndex &peak, const DimMapper< 2 > &mapper) const override |
Convert a PeakIndex to a XY coordinate (via mapper ). More... | |
String | getDataArrayDescription (const PeakIndex &peak_index) override |
Get name and value of all data-arrays corresponding to the given datapoint. More... | |
std::unique_ptr< LayerStatistics > | getStats () const override |
Compute layer statistics (via visitor) More... | |
Public Member Functions inherited from LayerDataBase | |
LayerDataBase ()=delete | |
Default constructor (for virtual inheritance) More... | |
LayerDataBase (const DataType type) | |
C'tor for child classes. More... | |
LayerDataBase (const LayerDataBase &ld)=default | |
Copy-C'tor. More... | |
LayerDataBase & | operator= (const LayerDataBase &ld)=delete |
Assignment operator. More... | |
LayerDataBase (LayerDataBase &&ld)=delete | |
LayerDataBase & | operator= (LayerDataBase &&ld)=delete |
Move assignment – deleted, by same argument as for move c'tor. More... | |
virtual | ~LayerDataBase ()=default |
D'tor. More... | |
virtual PeakIndex | findClosestDataPoint (const RangeAllType &area) const |
Find the closest datapoint within the given range and return a proxy to that datapoint. More... | |
virtual bool | annotate (const std::vector< PeptideIdentification > &identifications, const std::vector< ProteinIdentification > &protein_identifications) |
float | getMinIntensity () const |
Returns the minimum intensity of the internal data, depending on type. More... | |
float | getMaxIntensity () const |
Returns the maximum intensity of the internal data, depending on type. More... | |
const String & | getName () const |
The name of the layer, usually the basename of the file. More... | |
void | setName (const String &new_name) |
Set the name of the layer, usually the basename of the file. More... | |
const String & | getNameSuffix () const |
get the extra annotation to the layers name, e.g. '[39]' for which chromatogram index is currently shown in 1D More... | |
void | setNameSuffix (const String &decorator) |
set an extra annotation as suffix to the layers name, e.g. '[39]' for which chromatogram index is currently shown in 1D More... | |
virtual String | getDecoratedName () const |
get name augmented with attributes, e.g. '*' if modified More... | |
Protected Attributes | |
Mobilogram | single_mobilogram_ |
a single mobilogram (for now) – see class description More... | |
Additional Inherited Members | |
Public Attributes inherited from LayerDataBase | |
std::bitset< SIZE_OF_FLAGS > | flags |
Actual state of each flag. More... | |
bool | visible = true |
if this layer is visible More... | |
DataType | type = DT_UNKNOWN |
data type (peak or feature data, etc) More... | |
String | filename |
file name of the file the data comes from (if available) More... | |
Param | param |
Layer parameters. More... | |
MultiGradient | gradient |
Gradient for 2D and 3D views. More... | |
DataFilters | filters |
Filters to apply before painting. More... | |
bool | modifiable = false |
Flag that indicates if the layer data can be modified (so far used for features only) More... | |
bool | modified = false |
Flag that indicates that the layer data was modified since loading it. More... | |
LabelType | label = L_NONE |
Label type. More... | |
int | peptide_id_index = -1 |
Selected peptide id and hit index (-1 if none is selected) More... | |
int | peptide_hit_index = -1 |
Static Public Attributes inherited from LayerDataDefs | |
static const std::string | NamesOfLabelType [SIZE_OF_LABEL_TYPE] |
Label names. More... | |
Class that stores the data for one layer of type IonMobility.
FIXME: currently we only store a single mobilogram, since this is what is required to show a projection in 2D View. If there is another application, feel free to implement a surrounding container (don't use vector<Mobilogram>, do it properly! :)).
using PeakType = Mobilogram::PeakType |
Default constructor.
LayerDataIonMobility | ( | const LayerDataIonMobility & | ld | ) |
Copy-ctor.
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inlineoverridevirtual |
Find the datapoint with the highest intensity within the given range and return a proxy to that datapoint.
area | Range to search in. Only dimensions used in the canvas are populated. |
Reimplemented from LayerDataBase.
Get name and value of all data-arrays corresponding to the given datapoint.
Empty (or shorter) data-arrays are skipped.
peak_index | The datapoint |
Reimplemented from LayerDataBase.
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inline |
Referenced by LayerData1DIonMobility::getCurrentMobilogram().
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overridevirtual |
Obtain a painter which can draw the layer on a 2D canvas.
Implements LayerDataBase.
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overridevirtual |
Calculate a projection of the current layer for the given unit and the given area. E.g. the area might be restricted in RT and m/z, and then requested projection should return the XIC (unit
== RT) It is up to the implementation to decide on binning.
Implements LayerDataBase.
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inlineoverridevirtual |
Returns the data range of the whole layer (i.e. all scans/chroms/etc) in all known dimensions. If a layer does not support the dimension (or the layer is empty) the dimension will be empty If you need the data range for a 1D view (i.e. only a single spec/chrom/etc), call 'LayerDataBase1D::getRange1D()'
Implements LayerDataBase.
References RangeManager< RangeBases >::assign().
Referenced by LayerData1DIonMobility::getRange().
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overridevirtual |
Compute layer statistics (via visitor)
Implements LayerDataBase.
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delete |
no assignment operator (should not be needed)
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overridevirtual |
Convert a PeakIndex to a XY coordinate (via mapper
).
peak | The Peak to convert |
mapper | Converts the internal representation (e.g. Peak1D) to an XY coordinate |
Implements LayerDataBase.
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inline |
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overridevirtual |
Returns a visitor which contains the the full data of the layer and can write the data to disk in the appropriate format (e.g. mzML)
Reimplemented from LayerDataBase.
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overridevirtual |
Returns a visitor which contains the current visible data and can write the data to disk.
Reimplemented from LayerDataBase.
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overridevirtual |
Create a shallow copy (i.e. shared experimental data using shared_ptr) of the current layer, and make it 1D (i.e. support showing a single spec/chrom etc)
Implements LayerDataBase.
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inlineoverridevirtual |
Update ranges of the underlying data.
Implements LayerDataBase.
Referenced by LayerData1DIonMobility::updateRanges().
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protected |
a single mobilogram (for now) – see class description