Canvas for 2D-visualization of peak map, feature map and consensus map data. More...

#include <OpenMS/VISUAL/Plot2DCanvas.h>

Inheritance diagram for Plot2DCanvas:

Collaboration diagram for Plot2DCanvas:

Public Slots
void	activateLayer (Size layer_index) override

void	removeLayer (Size layer_index) override

void	updateLayer (Size i) override

void	horizontalScrollBarChange (int value) override

void	verticalScrollBarChange (int value) override

void	pickProjectionLayer ()
	Picks an appropriate layer for projection and emits the signal showProjections(LayerDataBase*). More...

Public Slots inherited from PlotCanvas
void	changeVisibility (Size i, bool b)
	change the visibility of a layer More...

void	changeLayerFilterState (Size i, bool b)
	change if the defined data filters are used More...

void	showGridLines (bool show)
	Whether or not to show grid lines. More...

virtual void	resetZoom (bool repaint=true)
	Zooms fully out and resets the zoom stack. More...

void	setVisibleArea (const VisibleArea &area)
	Sets the visible area. More...

void	setVisibleArea (const RangeAllType &area)
	Sets the visible area. More...

void	setVisibleArea (const AreaXYType &area)
	Sets the visible area. More...

void	setVisibleAreaX (double min, double max)
	Set only the visible area for the x axis; other axes are untouched. More...

void	setVisibleAreaY (double min, double max)
	Set only the visible area for the y axis; other axes are untouched. More...

void	saveCurrentLayer (bool visible)
	Saves the current layer data. More...

virtual void	horizontalScrollBarChange (int value)
	Notifies the canvas that the horizontal scrollbar has been moved. More...

virtual void	verticalScrollBarChange (int value)
	Notifies the canvas that the vertical scrollbar has been moved. More...

void	setAdditionalContextMenu (QMenu *menu)
	Sets the additional context menu. If not 0, this menu is added to the context menu of the canvas. More...

virtual void	updateLayer (Size i)=0
	Updates layer `i` when the data in the corresponding file changes. More...

AreaXYType	canvasPixelArea () const
	Get the Area in pixel coordinates of the current canvas for X and Y axis. More...

const DimMapper< 2 > &	getMapper () const
	Get Mapper to translate between values for axis (X/Y) and units (m/z, RT, intensity, ...) More...

void	setMapper (const DimMapper< 2 > &mapper)
	Set a new mapper for the canvas. More...

Signals
void	showProjections (const LayerDataBase *source_layer)
	Requests to show projections for the `source_layer`. Emitted after calling pickProjectionLayer(). More...

void	toggleProjections ()
	Signal emitted when the projections are to be shown/hidden (e.g. via context menu) More...

void	showSpectrumAsNew1D (int index)
	Requests to display the spectrum with index `index` in 1D. More...

void	showChromatogramsAsNew1D (std::vector< int, std::allocator< int > > indices)

void	showCurrentPeaksAs3D ()
	Requests to display all spectra in 3D plot. More...

void	showCurrentPeaksAsIonMobility (const MSSpectrum &spec)
	Requests to display this spectrum (=frame) in ion mobility plot. More...

Signals inherited from PlotCanvas
void	layerModficationChange (Size layer, bool modified)
	Signal emitted whenever the modification status of a layer changes (editing and storing) More...

void	layerActivated (QWidget *w)
	Signal emitted whenever a new layer is activated within the current window. More...

void	layerZoomChanged (QWidget *w)
	Signal emitted whenever the zoom changed. More...

void	visibleAreaChanged (const VisibleArea &area)
	Change of the visible area. More...

void	sendCursorStatus (const String &x_value, const String &y_value)
	Emitted when the cursor position changes (for displaying e.g. in status bar) More...

void	sendStatusMessage (std::string message, OpenMS::UInt time)
	Emits a status message that should be displayed for `time` ms. If `time` is 0 the message should be displayed until the next message is emitted. More...

void	recalculateAxes ()
	Forces recalculation of axis ticks in the connected widget. More...

void	updateVScrollbar (float f_min, float disp_min, float disp_max, float f_max)
	Triggers the update of the vertical scrollbar. More...

void	updateHScrollbar (float f_min, float disp_min, float disp_max, float f_max)
	Triggers the update of the horizontal scrollbar. More...

void	changeLegendVisibility ()
	Toggle axis legend visibility change. More...

void	actionModeChange ()
	Emitted when the action mode changes. More...

void	preferencesChange ()
	Emitted when the layer preferences have changed. More...

Public Member Functions
	Plot2DCanvas ()=delete
	Default C'tor hidden. More...

	Plot2DCanvas (const Param &preferences, QWidget *parent=nullptr)
	Constructor. More...

	~Plot2DCanvas () override
	Destructor. More...

void	showCurrentLayerPreferences () override
	Shows the preferences dialog of the active layer. More...

void	mergeIntoLayer (Size i, const FeatureMapSharedPtrType &map)
	Merges the features in `map` into the features layer `i`. More...

void	mergeIntoLayer (Size i, const ConsensusMapSharedPtrType &map)
	Merges the consensus features in `map` into the features layer `i`. More...

void	mergeIntoLayer (Size i, std::vector< PeptideIdentification > &peptides)
	Merges the peptide identifications in `peptides` into the peptide layer `i`. More...

void	recalculateCurrentLayerDotGradient ()
	recalculates the dot gradient of the active layer More...

Public Member Functions inherited from PlotCanvas
	PlotCanvas (const Param &preferences, QWidget *parent=nullptr)
	Default constructor. More...

	~PlotCanvas () override
	Destructor. More...

void	setPlotWidget (PlotWidget *widget)
	Sets the spectrum widget. More...

PlotWidget *	getPlotWidget () const
	Returns the spectrum widget. More...

Int	getActionMode () const
	Returns the action mode. More...

IntensityModes	getIntensityMode () const
	Returns the intensity mode. More...

void	setIntensityMode (IntensityModes mod)
	Sets the intensity mode. More...

bool	gridLinesShown () const
	Returns if the grid is currently shown. More...

const LayerDataBase &	getLayer (Size index) const
	returns the layer data with index `index` More...

LayerDataBase &	getLayer (Size index)
	returns the layer data with index `index` More...

const LayerDataBase &	getCurrentLayer () const
	returns the layer data of the active layer More...

LayerDataBase &	getCurrentLayer ()
	returns the layer data of the active layer More...

Size	getCurrentLayerIndex () const
	returns the index of the active layer More...

bool	getLayerFlag (LayerDataBase::Flags f) const
	returns a layer flag of the current layer More...

void	setLayerFlag (LayerDataBase::Flags f, bool value)
	sets a layer flag of the current layer More...

bool	getLayerFlag (Size layer, LayerDataBase::Flags f) const
	returns a layer flag of the layer `layer` More...

void	setLayerFlag (Size layer, LayerDataBase::Flags f, bool value)
	sets a layer flag of the layer `layer` More...

void	setLabel (LayerDataBase::LabelType label)

const VisibleArea &	getVisibleArea () const
	Returns the currently visible area. This is the authority which determines the X and Y axis' scale. More...

bool	isVisible (const PointOnAxis &p) const

PixelArea	getPixelRange () const

virtual void	setFilters (const DataFilters &filters)
	Sets the filters applied to the data before drawing (for the current layer) More...

Size	getLayerCount () const
	Returns the number of layers. More...

virtual void	activateLayer (Size layer_index)=0
	change the active layer (the one that is used for selecting and so on) More...

virtual void	removeLayer (Size layer_index)=0
	removes the layer with index `layer_index` More...

void	removeLayers ()
	removes all layers by calling removeLayer() for all layer indices (from highest to lowest) More...

bool	addLayer (std::unique_ptr< LayerData1DBase > layer)
	Add an already constructed layer (e.g. for projections) More...

bool	addPeakLayer (const ExperimentSharedPtrType &map, ODExperimentSharedPtrType od_map, const String &filename="", const String &caption="", const bool use_noise_cutoff=false)
	Add a peak data layer. More...

bool	addChromLayer (const ExperimentSharedPtrType &map, ODExperimentSharedPtrType od_map, const String &filename="", const String &caption="")
	Add a chrom data layer. More...

bool	addLayer (FeatureMapSharedPtrType map, const String &filename="", const String &caption="")
	Add a feature data layer. More...

bool	addLayer (ConsensusMapSharedPtrType map, const String &filename="", const String &caption="")
	Add a consensus feature data layer. More...

bool	addLayer (std::vector< PeptideIdentification > &peptides, const String &filename="", const String &caption="")
	Add an identification data layer. More...

float	getCurrentMinIntensity () const
	Returns the minimum intensity of the active layer. More...

float	getCurrentMaxIntensity () const
	Returns the maximum intensity of the active layer. More...

float	getMinIntensity (Size index) const
	Returns the minimum intensity of the layer with index `index`. More...

float	getMaxIntensity (Size index) const
	Returns the maximum intensity of the layer with index `index`. More...

void	setLayerName (Size i, const String &name)
	Sets the `name` of layer `i`. More...

String	getLayerName (Size i)
	Gets the name of layer `i`. More...

void	setCurrentLayerParameters (const Param &param)
	Sets the parameters of the current layer. More...

virtual const RangeType &	getDataRange () const
	Returns the area which encloses all data points of all layers. More...

double	getSnapFactor ()
	Returns the first intensity scaling factor for 'snap to maximum intensity mode' (for the currently visible data range). More...

double	getPercentageFactor () const
	Returns the percentage factor. More...

virtual void	showMetaData (bool modifiable=false, Int index=-1)
	Shows a dialog with the meta data. More...

Public Member Functions inherited from DefaultParamHandler
	DefaultParamHandler (const String &name)
	Constructor with name that is displayed in error messages. More...

	DefaultParamHandler (const DefaultParamHandler &rhs)
	Copy constructor. More...

virtual	~DefaultParamHandler ()
	Destructor. More...

DefaultParamHandler &	operator= (const DefaultParamHandler &rhs)
	Assignment operator. More...

virtual bool	operator== (const DefaultParamHandler &rhs) const
	Equality operator. More...

void	setParameters (const Param &param)
	Sets the parameters. More...

const Param &	getParameters () const
	Non-mutable access to the parameters. More...

const Param &	getDefaults () const
	Non-mutable access to the default parameters. More...

const String &	getName () const
	Non-mutable access to the name. More...

void	setName (const String &name)
	Mutable access to the name. More...

const std::vector< String > &	getSubsections () const
	Non-mutable access to the registered subsections. More...

Protected Slots
void	currentLayerParametersChanged_ ()
	Reacts on changed layer parameters. More...

Protected Slots inherited from PlotCanvas
void	updateCursor_ ()
	Updates the cursor according to the current action mode. More...

Protected Member Functions
bool	finishAdding_ () override
	Method that is called when a new layer has been added. More...

bool	collectFragmentScansInArea_ (const RangeType &range, QAction a, QMenu msn_scans, QMenu *msn_meta)
	Collects fragment ion scans in the indicated RT/mz area and adds them to the indicated action. More...

void	drawCoordinates_ (QPainter &painter, const PeakIndex &peak)
	Draws the coordinates (or coordinate deltas) to the widget's upper left corner. More...

void	drawDeltas_ (QPainter &painter, const PeakIndex &start, const PeakIndex &end)
	Draws the coordinates (or coordinate deltas) to the widget's upper left corner. More...

Protected Member Functions inherited from PlotCanvas
void	resizeEvent (QResizeEvent *e) override

void	wheelEvent (QWheelEvent *e) override

void	keyPressEvent (QKeyEvent *e) override

void	keyReleaseEvent (QKeyEvent *e) override

void	focusOutEvent (QFocusEvent *e) override

void	leaveEvent (QEvent *e) override

void	enterEvent (QEvent *e) override

void	dimensionsChanged_ ()
	Call this whenever the DimMapper receives new dimensions; will update the axes and scrollbars. More...

virtual void	changeVisibleArea_ (VisibleArea new_area, bool repaint=true, bool add_to_stack=false)
	Sets the visible area. More...

virtual void	zoom_ (int x, int y, bool zoom_in)
	Zooms such that screen point x, y would still point to the same data point. More...

void	zoomBack_ ()
	Go backward in zoom history. More...

virtual void	zoomForward_ ()
	Go forward in zoom history. More...

void	zoomAdd_ (const VisibleArea &area)
	Add a visible area to the zoom stack. More...

void	zoomClear_ ()
	Clears the zoom stack and invalidates the current zoom position. After calling this, a valid zoom position has to be added immediately. More...

PointXYType	widgetToData_ (double x, double y)
	Convert widget (pixel) to chart (unit) coordinates. More...

PointXYType	widgetToData_ (const QPoint &pos)
	Calls widgetToData_ with x and y position of `pos`. More...

virtual void	paintGridLines_ (QPainter &painter)
	Helper function to paint grid lines. More...

virtual void	recalculateRanges_ ()
	Recalculates the overall_data_range_. More...

virtual void	update_ (const char *caller_name)
	Updates the displayed data. More...

void	modificationStatus_ (Size layer_index, bool modified)
	Takes all actions necessary when the modification status of a layer changes (signals etc.) More...

void	addDataProcessing_ (PeakMap &map, DataProcessing::ProcessingAction action) const
	Data processing setter for peak maps. More...

void	drawText_ (QPainter &painter, const QStringList &text)
	Draws several lines of text to the upper right corner of the widget. More...

double	getIdentificationMZ_ (const Size layer_index, const PeptideIdentification &peptide) const
	Returns the m/z value of an identification depending on the m/z source of the layer (precursor mass/theoretical peptide mass) More...

void	popIncompleteLayer_ (const QString &error_message="")

Protected Member Functions inherited from DefaultParamHandler
virtual void	updateMembers_ ()
	This method is used to update extra member variables at the end of the setParameters() method. More...

void	defaultsToParam_ ()
	Updates the parameters after the defaults have been set in the constructor. More...

Reimplemented QT events
class	Painter2DBase

class	Painter2DChrom

class	Painter2DConsensus

class	Painter2DIdent

class	Painter2DFeature

class	Painter2DIonMobility

class	Painter2DPeak

PeakIndex	selected_peak_
	the nearest peak/feature to the mouse cursor More...

PeakIndex	measurement_start_
	start peak/feature of measuring mode More...

MultiGradient	linear_gradient_
	stores the linear color gradient for non-log modes More...

double	pen_size_min_
	minimum number of pixels for one data point More...

double	pen_size_max_
	maximum number of pixels for one data point More...

double	canvas_coverage_min_
	minimum coverage of the canvas required; if lower, points are upscaled in size More...

void	mousePressEvent (QMouseEvent *e) override

void	mouseReleaseEvent (QMouseEvent *e) override

void	mouseMoveEvent (QMouseEvent *e) override

void	paintEvent (QPaintEvent *e) override

void	contextMenuEvent (QContextMenuEvent *e) override

void	keyPressEvent (QKeyEvent *e) override

void	keyReleaseEvent (QKeyEvent *e) override

void	mouseDoubleClickEvent (QMouseEvent *e) override

void	updateScrollbars_ () override
	Updates the scroll bars. More...

void	intensityModeChange_ () override
	This method is called whenever the intensity mode changes. Reimplement if you need to react on such changes. More...

void	recalculateSnapFactor_ () override
	Recalculates the intensity scaling factor for 'snap to maximum intensity mode'. More...

Int	precalculatedColorIndex_ (float val, const MultiGradient &gradient, double snap_factor)
	Returns the position on color `gradient` associated with given intensity. More...

QColor	heightColor_ (float val, const MultiGradient &gradient, double snap_factor)
	Returns the color associated with `val` for the gradient `gradient`. More...

double	adaptPenScaling_ (double ratio_data2pixel, double &pen_size) const
	For a certain dimension: computes the size a data point would need, such that the image reaches a certain coverage. More...

void	recalculateDotGradient_ (Size layer)
	Recalculates the dot gradient of a layer. More...

void	highlightPeak_ (QPainter &p, const PeakIndex &peak)
	Highlights a single peak and prints coordinates to screen. More...

PeakIndex	findNearestPeak_ (const QPoint &pos)
	Returns the nearest peak to position `pos`. More...

void	paintIcon_ (const QPoint &pos, const QRgb &color, const String &icon, Size s, QPainter &p) const
	Paints a peak icon for feature and consensus feature peaks. More...

void	translateVisibleArea_ (double x_axis_rel, double y_axis_rel)
	Translates the visible area by a given offset specified in fractions of current visible area. More...

QPoint	dataToWidget_ (double x, double y) const
	Convert chart to widget coordinates. More...

QPoint	dataToWidget_ (const DPosition< 2 > &xy)

void	translateLeft_ (Qt::KeyboardModifiers m) override
	Translation bound to the 'Left' key. More...

void	translateRight_ (Qt::KeyboardModifiers m) override
	Translation bound to the 'Right' key. More...

void	translateForward_ () override
	Translation bound to the 'Up' key. More...

void	translateBackward_ () override
	Translation bound to the 'Down' key. More...

void	finishContextMenu_ (QMenu context_menu, QMenu settings_menu)
	Finishes context menu after customization to peaks, features or consensus features. More...

Additional Inherited Members
Public Types inherited from PlotCanvas
enum	ActionModes { AM_TRANSLATE , AM_ZOOM , AM_MEASURE }
	Mouse action modes. More...

enum	IntensityModes { IM_NONE , IM_PERCENTAGE , IM_SNAP , IM_LOG }
	Display modes of intensity. More...

typedef LayerDataBase::ExperimentType	ExperimentType
	Main data type (experiment) More...

typedef LayerDataBase::ExperimentSharedPtrType	ExperimentSharedPtrType
	Main managed data type (experiment) More...

typedef LayerDataBase::ConstExperimentSharedPtrType	ConstExperimentSharedPtrType

typedef LayerDataBase::ODExperimentSharedPtrType	ODExperimentSharedPtrType

typedef LayerDataBase::FeatureMapType	FeatureMapType
	Main data type (features) More...

typedef LayerDataBase::FeatureMapSharedPtrType	FeatureMapSharedPtrType
	Main managed data type (features) More...

typedef LayerDataBase::ConsensusMapType	ConsensusMapType
	Main data type (consensus features) More...

typedef LayerDataBase::ConsensusMapSharedPtrType	ConsensusMapSharedPtrType
	Main managed data type (consensus features) More...

typedef ExperimentType::SpectrumType	SpectrumType
	Spectrum type. More...

typedef SpectrumType::ConstIterator	SpectrumConstIteratorType
	Spectrum iterator type (iterates over peaks) More...

typedef SpectrumType::PeakType	PeakType
	Peak type. More...

using	RangeType = RangeAllType
	a generic range for the most common units More...

using	AreaXYType = Area< 2 >::AreaXYType
	The range of data shown on the X and Y axis (unit depends on runtime config) More...

using	VisibleArea = Area< 2 >
	The visible range of data on X and Y axis as shown on plot axis (not necessarily the range of actual data, e.g. no data to show). More...

using	GenericArea = Area< 2 >
	A generic range of data on X and Y axis as shown on plot axis. More...

using	PixelArea = Area< 2 >

using	UnitRange = RangeAllType

using	PointOnAxis = DimMapper< 2 >::Point

Static Public Member Functions inherited from DefaultParamHandler
static void	writeParametersToMetaValues (const Param &write_this, MetaInfoInterface &write_here, const String &key_prefix="")
	Writes all parameters to meta values. More...

Protected Attributes inherited from PlotCanvas
QImage	buffer_
	Buffer that stores the actual peak information. More...

DimMapper< 2 >	unit_mapper_
	Mapper for X and Y axis. More...

ActionModes	action_mode_ = AM_TRANSLATE
	Stores the current action mode (Pick, Zoom, Translate) More...

IntensityModes	intensity_mode_ = IM_NONE
	Stores the used intensity mode function. More...

LayerStack	layers_
	Layer data. More...

VisibleArea	visible_area_
	Stores the currently visible area in data units (e.g. seconds, m/z, intensity etc) and axis (X,Y) area. More...

RangeType	overall_data_range_
	Stores the data range (m/z, RT and intensity) of all layers. More...

bool	show_grid_ = true
	Stores whether or not to show a grid. More...

std::vector< VisibleArea >	zoom_stack_
	The zoom stack. More...

std::vector< VisibleArea >::iterator	zoom_pos_ = zoom_stack_.end()
	The current position in the zoom stack. More...

bool	update_buffer_ = false
	Whether to recalculate the data in the buffer when repainting. More...

PlotWidget *	spectrum_widget_ = nullptr
	Back-pointer to the enclosing spectrum widget. More...

QPoint	last_mouse_pos_
	start position of mouse actions More...

double	percentage_factor_ = 1.0
	Intensity scaling factor for relative scale with multiple layers. More...

std::vector< double >	snap_factors_
	Intensity scaling factor for 'snap to maximum intensity mode'. More...

QRubberBand	rubber_band_
	Rubber band for selected area. More...

QMenu *	context_add_ = nullptr
	External context menu extension. More...

bool	show_timing_ = false
	Flag that determines if timing data is printed to the command line. More...

PeakIndex	selected_peak_
	selected peak More...

PeakIndex	measurement_start_
	start peak of measuring mode More...

Protected Attributes inherited from DefaultParamHandler
Param	param_
	Container for current parameters. More...

Param	defaults_
	Container for default parameters. This member should be filled in the constructor of derived classes! More...

std::vector< String >	subsections_
	Container for registered subsections. This member should be filled in the constructor of derived classes! More...

String	error_name_
	Name that is displayed in error messages during the parameter checking. More...

bool	check_defaults_
	If this member is set to false no checking if parameters in done;. More...

bool	warn_empty_defaults_
	If this member is set to false no warning is emitted when defaults are empty;. More...

Detailed Description

Canvas for 2D-visualization of peak map, feature map and consensus map data.

This widget displays a 2D representation of a set of peaks, features or consensus elements.

The example image shows Plot2DCanvas displaying a peak layer and a feature layer.

Parameters of this class are:

Name	Type	Default	Restrictions	Description
default_path	string	.		Default path for loading/storing data.
background_color	string	@#ffffff		Background color.
interpolation_steps	int	1000	min: 1 max: 1000	Number of interpolation steps for peak gradient pre-calculation.
dot:gradient	string	Linear\|0,@#eeeeee;1,@#ffea00;6,@#ff0000;14,@#aa00ff;23,@#5500ff;100,@#000000		Multi-color gradient for peaks.
dot:feature_icon	string	circle	diamond, square, circle, triangle	Icon used for features and consensus features.
dot:feature_icon_size	int	4	min: 1 max: 999	Icon size used for features and consensus features.

Note:

If a section name is documented, the documentation is displayed as tooltip.
Advanced parameter names are italic.

Improvement:: Add RT interpolation mode for high zoom in 2D View (Hiwi)

Improvement:: Snap also to min intensity (Hiwi)

Constructor & Destructor Documentation

◆ Plot2DCanvas() [1/2]

Plot2DCanvas ( )

delete

Default C'tor hidden.

◆ Plot2DCanvas() [2/2]

Plot2DCanvas	(	const Param &	preferences,
		QWidget *	parent = `nullptr`
	)

Constructor.

◆ ~Plot2DCanvas()

~Plot2DCanvas ( )

override

Destructor.

Member Function Documentation

◆ activateLayer

void activateLayer ( Size layer_index )

overrideslot

◆ adaptPenScaling_()

double adaptPenScaling_	(	double	ratio_data2pixel,
		double &	pen_size
	)		const

protected

For a certain dimension: computes the size a data point would need, such that the image reaches a certain coverage.

Internally, this function makes use of the members 'canvas_coverage_min_' (giving the fraction (e.g. 20%) of area which should be covered by data) and 'pen_size_max_' (maximum allowed number of pixels per data point).

Parameters

ratio_data2pixel	The current ratio of # data points vs. # pixels of image
pen_size	In/Out param: gives the initial pen size, and is increased (up to `MAX_PEN_SIZE`) to reach desired coverage given by 'canvas_coverage_min_'

Returns: The factor by which pen_size increased (gives a hint of how many data points should be merged to avoid overplotting)

◆ collectFragmentScansInArea_()

bool collectFragmentScansInArea_	(	const RangeType &	range,
		QAction *	a,
		QMenu *	msn_scans,
		QMenu *	msn_meta
	)

protected

Collects fragment ion scans in the indicated RT/mz area and adds them to the indicated action.

◆ contextMenuEvent()

void contextMenuEvent ( QContextMenuEvent * e )

overrideprotected

◆ currentLayerParametersChanged_

void currentLayerParametersChanged_ ( )

protectedslot

Reacts on changed layer parameters.

◆ dataToWidget_() [1/2]

QPoint dataToWidget_ ( const DPosition< 2 > & xy )

inlineprotected

References DPosition< D, TCoordinateType >::getX(), and DPosition< D, TCoordinateType >::getY().

◆ dataToWidget_() [2/2]

QPoint dataToWidget_	(	double	x,
		double	y
	)		const

inlineprotected

Convert chart to widget coordinates.

Translates chart coordinates to widget coordinates.

Parameters

x	the chart coordinate x
y	the chart coordinate y

Returns: A point in widget coordinates

◆ drawCoordinates_()

void drawCoordinates_	(	QPainter &	painter,
		const PeakIndex &	peak
	)

protected

Draws the coordinates (or coordinate deltas) to the widget's upper left corner.

◆ drawDeltas_()

void drawDeltas_	(	QPainter &	painter,
		const PeakIndex &	start,
		const PeakIndex &	end
	)

protected

Draws the coordinates (or coordinate deltas) to the widget's upper left corner.

◆ findNearestPeak_()

PeakIndex findNearestPeak_ ( const QPoint & pos )

protected

Returns the nearest peak to position pos.

◆ finishAdding_()

bool finishAdding_ ( )

overrideprotectedvirtual

Method that is called when a new layer has been added.

Implements PlotCanvas.

◆ finishContextMenu_()

void finishContextMenu_	(	QMenu *	context_menu,
		QMenu *	settings_menu
	)

protected

Finishes context menu after customization to peaks, features or consensus features.

◆ heightColor_()

QColor heightColor_	(	float	val,
		const MultiGradient &	gradient,
		double	snap_factor
	)

inlineprotected

Returns the color associated with val for the gradient gradient.

Takes intensity modes into account.

References MultiGradient::precalculatedColorByIndex().

◆ highlightPeak_()

void highlightPeak_	(	QPainter &	p,
		const PeakIndex &	peak
	)

protected

Highlights a single peak and prints coordinates to screen.

◆ horizontalScrollBarChange

void horizontalScrollBarChange ( int value )

overrideslot

◆ intensityModeChange_()

void intensityModeChange_ ( )

overrideprotectedvirtual

This method is called whenever the intensity mode changes. Reimplement if you need to react on such changes.

Reimplemented from PlotCanvas.

◆ keyPressEvent()

void keyPressEvent ( QKeyEvent * e )

overrideprotected

◆ keyReleaseEvent()

void keyReleaseEvent ( QKeyEvent * e )

overrideprotected

◆ mergeIntoLayer() [1/3]

void mergeIntoLayer	(	Size	i,
		const ConsensusMapSharedPtrType &	map
	)

Merges the consensus features in map into the features layer i.

◆ mergeIntoLayer() [2/3]

void mergeIntoLayer	(	Size	i,
		const FeatureMapSharedPtrType &	map
	)

Merges the features in map into the features layer i.

Referenced by TOPPViewBase::addData().

◆ mergeIntoLayer() [3/3]

void mergeIntoLayer	(	Size	i,
		std::vector< PeptideIdentification > &	peptides
	)

Merges the peptide identifications in peptides into the peptide layer i.

◆ mouseDoubleClickEvent()

void mouseDoubleClickEvent ( QMouseEvent * e )

overrideprotected

◆ mouseMoveEvent()

void mouseMoveEvent ( QMouseEvent * e )

overrideprotected

◆ mousePressEvent()

void mousePressEvent ( QMouseEvent * e )

overrideprotected

◆ mouseReleaseEvent()

void mouseReleaseEvent ( QMouseEvent * e )

overrideprotected

◆ paintEvent()

void paintEvent ( QPaintEvent * e )

overrideprotected

◆ paintIcon_()

void paintIcon_	(	const QPoint &	pos,
		const QRgb &	color,
		const String &	icon,
		Size	s,
		QPainter &	p
	)		const

protected

Paints a peak icon for feature and consensus feature peaks.

◆ pickProjectionLayer

void pickProjectionLayer ( )

slot

Picks an appropriate layer for projection and emits the signal showProjections(LayerDataBase*).

◆ precalculatedColorIndex_()

Int precalculatedColorIndex_	(	float	val,
		const MultiGradient &	gradient,
		double	snap_factor
	)

inlineprotected

Returns the position on color gradient associated with given intensity.

Takes intensity modes into account.

References MultiGradient::precalculatedColorIndex().

◆ recalculateCurrentLayerDotGradient()

void recalculateCurrentLayerDotGradient ( )

recalculates the dot gradient of the active layer

◆ recalculateDotGradient_()

void recalculateDotGradient_ ( Size layer )

protected

Recalculates the dot gradient of a layer.

◆ recalculateSnapFactor_()

void recalculateSnapFactor_ ( )

overrideprotectedvirtual

Recalculates the intensity scaling factor for 'snap to maximum intensity mode'.

See also: snap_factors_

Reimplemented from PlotCanvas.

◆ removeLayer

void removeLayer ( Size layer_index )

overrideslot

◆ showChromatogramsAsNew1D

void showChromatogramsAsNew1D ( std::vector< int, std::allocator< int > > indices )

signal

◆ showCurrentLayerPreferences()

void showCurrentLayerPreferences ( )

overridevirtual

Shows the preferences dialog of the active layer.

Implements PlotCanvas.

◆ showCurrentPeaksAs3D

void showCurrentPeaksAs3D ( )

signal

Requests to display all spectra in 3D plot.

◆ showCurrentPeaksAsIonMobility

void showCurrentPeaksAsIonMobility ( const MSSpectrum & spec )

signal

Requests to display this spectrum (=frame) in ion mobility plot.

◆ showProjections

void showProjections ( const LayerDataBase * source_layer )

signal

Requests to show projections for the source_layer. Emitted after calling pickProjectionLayer().

◆ showSpectrumAsNew1D

void showSpectrumAsNew1D ( int index )

signal

Requests to display the spectrum with index index in 1D.

◆ toggleProjections

void toggleProjections ( )

signal

Signal emitted when the projections are to be shown/hidden (e.g. via context menu)

◆ translateBackward_()

void translateBackward_ ( )

overrideprotectedvirtual

Translation bound to the 'Down' key.

Reimplemented from PlotCanvas.

◆ translateForward_()

void translateForward_ ( )

overrideprotectedvirtual

Translation bound to the 'Up' key.

Reimplemented from PlotCanvas.

◆ translateLeft_()

void translateLeft_ ( Qt::KeyboardModifiers m )

overrideprotectedvirtual

Translation bound to the 'Left' key.

Reimplemented from PlotCanvas.

◆ translateRight_()

void translateRight_ ( Qt::KeyboardModifiers m )

overrideprotectedvirtual

Translation bound to the 'Right' key.

Reimplemented from PlotCanvas.

◆ translateVisibleArea_()

void translateVisibleArea_	(	double	x_axis_rel,
		double	y_axis_rel
	)

protected

Translates the visible area by a given offset specified in fractions of current visible area.

◆ updateLayer

void updateLayer ( Size i )

overrideslot

◆ updateScrollbars_()

void updateScrollbars_ ( )

overrideprotectedvirtual

Updates the scroll bars.

Updates the scrollbars after a change of the visible area.

Reimplemented from PlotCanvas.

◆ verticalScrollBarChange

void verticalScrollBarChange ( int value )

overrideslot

Friends And Related Function Documentation

◆ Painter2DBase

friend class Painter2DBase

friend

◆ Painter2DChrom

friend class Painter2DChrom

friend

◆ Painter2DConsensus

friend class Painter2DConsensus

friend

◆ Painter2DFeature

friend class Painter2DFeature

friend

◆ Painter2DIdent

friend class Painter2DIdent

friend

◆ Painter2DIonMobility

friend class Painter2DIonMobility

friend

◆ Painter2DPeak

friend class Painter2DPeak

friend

Member Data Documentation

◆ canvas_coverage_min_

double canvas_coverage_min_

protected

minimum coverage of the canvas required; if lower, points are upscaled in size

◆ linear_gradient_

MultiGradient linear_gradient_

protected

stores the linear color gradient for non-log modes

◆ measurement_start_

PeakIndex measurement_start_

protected

start peak/feature of measuring mode

◆ pen_size_max_

double pen_size_max_

protected

maximum number of pixels for one data point

◆ pen_size_min_

double pen_size_min_

protected

minimum number of pixels for one data point

◆ selected_peak_

PeakIndex selected_peak_

protected

the nearest peak/feature to the mouse cursor

Public Slots

Signals

Public Member Functions

Protected Slots

Protected Member Functions

Reimplemented QT events

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ Plot2DCanvas() [1/2]

◆ Plot2DCanvas() [2/2]

◆ ~Plot2DCanvas()

Member Function Documentation

◆ activateLayer

◆ adaptPenScaling_()

◆ collectFragmentScansInArea_()

◆ contextMenuEvent()

◆ currentLayerParametersChanged_

◆ dataToWidget_() [1/2]

◆ dataToWidget_() [2/2]

◆ drawCoordinates_()

◆ drawDeltas_()

◆ findNearestPeak_()

◆ finishAdding_()

◆ finishContextMenu_()

◆ heightColor_()

◆ highlightPeak_()

◆ horizontalScrollBarChange

◆ intensityModeChange_()

◆ keyPressEvent()

◆ keyReleaseEvent()

◆ mergeIntoLayer() [1/3]

◆ mergeIntoLayer() [2/3]

◆ mergeIntoLayer() [3/3]

◆ mouseDoubleClickEvent()

◆ mouseMoveEvent()

◆ mousePressEvent()

◆ mouseReleaseEvent()

◆ paintEvent()

◆ paintIcon_()

◆ pickProjectionLayer

◆ precalculatedColorIndex_()

◆ recalculateCurrentLayerDotGradient()

◆ recalculateDotGradient_()

◆ recalculateSnapFactor_()

◆ removeLayer

◆ showChromatogramsAsNew1D

◆ showCurrentLayerPreferences()

◆ showCurrentPeaksAs3D

◆ showCurrentPeaksAsIonMobility

◆ showProjections

◆ showSpectrumAsNew1D

◆ toggleProjections

◆ translateBackward_()

◆ translateForward_()

◆ translateLeft_()

◆ translateRight_()

◆ translateVisibleArea_()

◆ updateLayer

◆ updateScrollbars_()

◆ verticalScrollBarChange

Friends And Related Function Documentation

◆ Painter2DBase

◆ Painter2DChrom

◆ Painter2DConsensus

◆ Painter2DFeature

◆ Painter2DIdent

◆ Painter2DIonMobility

◆ Painter2DPeak

Member Data Documentation

◆ canvas_coverage_min_

◆ linear_gradient_

◆ measurement_start_

◆ pen_size_max_

◆ pen_size_min_

◆ selected_peak_