Abstract base class for all D-dimensional models. More...

#include <OpenMS/TRANSFORMATIONS/FEATUREFINDER/BaseModel.h>

Inheritance diagram for BaseModel< D >:

Collaboration diagram for BaseModel< D >:

Public Types
typedef double	IntensityType

typedef double	CoordinateType

typedef DPosition< D >	PositionType

typedef DPeak< D >::Type	PeakType

typedef std::vector< PeakType >	SamplesType

Public Member Functions
	BaseModel ()
	Default constructor. More...

	BaseModel (const BaseModel &source)
	copy constructor More...

	~BaseModel () override
	Destructor. More...

virtual BaseModel &	operator= (const BaseModel &source)
	assignment operator More...

virtual IntensityType	getIntensity (const PositionType &pos) const =0
	access model predicted intensity at position `pos` More...

virtual bool	isContained (const PositionType &pos) const
	check if position `pos` is part of the model regarding the models cut-off. More...

template<typename PeakType >
void	fillIntensity (PeakType &peak) const
	Convenience function to set the intensity of a peak to the predicted intensity at its current position, calling virtual void getIntensity(). More...

template<class PeakIterator >
void	fillIntensities (PeakIterator begin, PeakIterator end) const
	Convenience function that applies fillIntensity() to an iterator range. More...

virtual IntensityType	getCutOff () const
	get cutoff value More...

virtual void	setCutOff (IntensityType cut_off)
	set cutoff value More...

virtual void	getSamples (SamplesType &cont) const =0
	get reasonable set of samples from the model (i.e. for printing) More...

virtual void	getSamples (std::ostream &os)
	fill stream with reasonable set of samples from the model (i.e. for printing) More...

void	registerChildren ()

void	registerChildren ()

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...

virtual 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...

Static Public Member Functions
static void	registerChildren ()
	register all derived classes here (implemented in file BaseModel_impl.h) More...

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 Member Functions
void	updateMembers_ () override
	This method is used to update extra member variables at the end of the setParameters() method. More...

Protected Member Functions inherited from DefaultParamHandler
void	defaultsToParam_ ()
	Updates the parameters after the defaults have been set in the constructor. More...

Protected Attributes
IntensityType	cut_off_

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

template<UInt D>
class OpenMS::BaseModel< D >

Abstract base class for all D-dimensional models.

Every derived class has to implement the static functions "T* create()" and "const String getProductName()" (see DefaultParamHandler for details)

Member Typedef Documentation

◆ CoordinateType

typedef double CoordinateType

◆ IntensityType

typedef double IntensityType

◆ PeakType

typedef DPeak<D>::Type PeakType

◆ PositionType

typedef DPosition<D> PositionType

◆ SamplesType

typedef std::vector<PeakType> SamplesType

Constructor & Destructor Documentation

◆ BaseModel() [1/2]

BaseModel ( )

inline

Default constructor.

References DefaultParamHandler::defaults_, and Param::setValue().

◆ BaseModel() [2/2]

BaseModel ( const BaseModel< D > & source )

inline

copy constructor

◆ ~BaseModel()

~BaseModel ( )

inlineoverride

Destructor.

Member Function Documentation

◆ fillIntensities()

void fillIntensities	(	PeakIterator	begin,
		PeakIterator	end
	)		const

inline

Convenience function that applies fillIntensity() to an iterator range.

References BaseModel< D >::fillIntensity().

◆ fillIntensity()

void fillIntensity ( PeakType & peak ) const

inline

Convenience function to set the intensity of a peak to the predicted intensity at its current position, calling virtual void getIntensity().

References BaseModel< D >::getIntensity().

Referenced by BaseModel< D >::fillIntensities().

◆ getCutOff()

virtual IntensityType getCutOff ( ) const

inlinevirtual

get cutoff value

References BaseModel< D >::cut_off_.

◆ getIntensity()

virtual IntensityType getIntensity ( const PositionType & pos ) const

pure virtual

access model predicted intensity at position pos

Implemented in ProductModel< 2 >.

Referenced by BaseModel< D >::fillIntensity(), and BaseModel< D >::isContained().

◆ getSamples() [1/2]

virtual void getSamples ( SamplesType & cont ) const

pure virtual

get reasonable set of samples from the model (i.e. for printing)

Implemented in ProductModel< 2 >, and InterpolationModel.

Referenced by BaseModel< D >::getSamples().

◆ getSamples() [2/2]

virtual void getSamples ( std::ostream & os )

inlinevirtual

fill stream with reasonable set of samples from the model (i.e. for printing)

References BaseModel< D >::getSamples().

◆ isContained()

virtual bool isContained ( const PositionType & pos ) const

inlinevirtual

check if position pos is part of the model regarding the models cut-off.

References BaseModel< D >::cut_off_, and BaseModel< D >::getIntensity().

◆ operator=()

virtual BaseModel& operator= ( const BaseModel< D > & source )

inlinevirtual

assignment operator

References BaseModel< D >::cut_off_, and DefaultParamHandler::operator=().

Referenced by InterpolationModel::operator=(), and ProductModel< 2 >::operator=().

◆ registerChildren() [1/3]

static void registerChildren ( )

static

register all derived classes here (implemented in file BaseModel_impl.h)

◆ registerChildren() [2/3]

void registerChildren ( )

◆ registerChildren() [3/3]

void registerChildren ( )

◆ setCutOff()

virtual void setCutOff ( IntensityType cut_off )

inlinevirtual

set cutoff value

References BaseModel< D >::cut_off_, DefaultParamHandler::param_, and Param::setValue().

◆ updateMembers_()

void updateMembers_ ( )

inlineoverrideprotectedvirtual

This method is used to update extra member variables at the end of the setParameters() method.

Also call it at the end of the derived classes' copy constructor and assignment operator.

The default implementation is empty.

Reimplemented from DefaultParamHandler.

References BaseModel< D >::cut_off_, Param::getValue(), and DefaultParamHandler::param_.

Referenced by InterpolationModel::updateMembers_(), and ProductModel< 2 >::updateMembers_().

Member Data Documentation

◆ cut_off_

IntensityType cut_off_

protected

Referenced by BaseModel< D >::getCutOff(), BaseModel< D >::isContained(), BaseModel< D >::operator=(), BaseModel< D >::setCutOff(), and BaseModel< D >::updateMembers_().

Public Types

Public Member Functions

Static Public Member Functions

Protected Member Functions

Protected Attributes

Detailed Description

template<UInt D> class OpenMS::BaseModel< D >

Member Typedef Documentation

◆ CoordinateType

◆ IntensityType

◆ PeakType

◆ PositionType

◆ SamplesType

Constructor & Destructor Documentation

◆ BaseModel() [1/2]

◆ BaseModel() [2/2]

◆ ~BaseModel()

Member Function Documentation

◆ fillIntensities()

◆ fillIntensity()

◆ getCutOff()

◆ getIntensity()

◆ getSamples() [1/2]

◆ getSamples() [2/2]

◆ isContained()

◆ operator=()

◆ registerChildren() [1/3]

◆ registerChildren() [2/3]

◆ registerChildren() [3/3]

◆ setCutOff()

◆ updateMembers_()

Member Data Documentation

◆ cut_off_

template<UInt D>
class OpenMS::BaseModel< D >