Search Toolkit Book for DynProgProbLim

#include "njn_dynprogproblim.hpp"
(Private to src/algo/blast/gumbel_params.)

Inheritance diagram for DynProgProbLim:

Collaboration diagram for DynProgProbLim:

Public Member Functions
	DynProgProbLim (ValueFct valueFct_=0, size_t dimInputProb_=0, const double inputProb_=0, Int4 valueLower_=0, Int4 valueUpper_=0, const double *prob_=0)

	DynProgProbLim (const DynProgProbLim &dynProgProbLim_)

virtual	~DynProgProbLim ()

virtual DynProgProbLim &	operator= (const DynProgProbLim &dynProgProbLim_)

virtual DynProgProbLim &	operator= (const DynProgProb &dynProgProb_)

virtual void	copy (const DynProgProbLim &dynProgProbLim_)

virtual void	copy (const DynProgProb &dynProgProb_, double probLost_)

virtual void	copy (const DynProgProb &dynProgProb_)

virtual void	copy (size_t step_, const double const array_, size_t arrayCapacity_, Int4 valueBegin_=0, Int4 valueLower_=0, Int4 valueUpper_=0, ValueFct valueFct_=0, size_t dimInputProb_=0, const double inputProb_=0)

virtual void	setLimits (Int4 valueBegin_=0, Int4 valueEnd_=0)

virtual void	update ()

virtual void	clear (Int4 valueLower_, Int4 valueUpper_=0, const double *prob_=0)

virtual void	clear (Int4 valueBegin_, size_t arrayCapacity_)

virtual void	clear ()

virtual double	getProbLost () const

virtual void	setValueFct (ValueFct *valueFct_)

virtual void	setInput (size_t dimInputProb_, const double *inputProb_)

virtual double	getProb (Int4 value_) const

virtual size_t	getStep () const

virtual const double const	getArray () const

virtual size_t	getArrayCapacity () const

virtual Int4	getValueBegin () const

virtual Int4	getValueLower () const

virtual Int4	getValueUpper () const

virtual ValueFct *	getValueFct () const

virtual size_t	getDimInputProb () const

virtual const double *	getInputProb () const

Public Member Functions inherited from DynProgProb
	DynProgProb (ValueFct valueFct_=0, size_t dimInputProb_=0, const double inputProb_=0, Int4 valueLower_=0, Int4 valueUpper_=0, const double *prob_=0)

	DynProgProb (const DynProgProb &dynProgProb_)

virtual	~DynProgProb ()

virtual	operator bool () const

virtual void	setValueFct (ValueFct *valueFct_)

virtual void	setInput (size_t dimInputProb_, const double *inputProb_)

virtual double	getProb (Int4 value_) const

virtual size_t	getStep () const

virtual const double const	getArray () const

virtual size_t	getArrayCapacity () const

virtual Int4	getValueBegin () const

virtual Int4	getValueLower () const

virtual Int4	getValueUpper () const

virtual ValueFct *	getValueFct () const

virtual size_t	getDimInputProb () const

virtual const double *	getInputProb () const

Public Member Functions inherited from DynProgProbProto
virtual	~DynProgProbProto ()

Private Member Functions
virtual void	reserve (size_t arrayCapacity_)

virtual void	setValueBegin (Int4 valueBegin_)

virtual Int4	getValueEnd () const

virtual Int4	getArrayPos (Int4 value_) const

Private Attributes
double	d_probLost

Additional Inherited Members
Public Types inherited from DynProgProbProto
typedef Int4	ValueFct(Int4 oldValue_, size_t input_)

Static Public Attributes inherited from DynProgProb
static const size_t	VALUE_BEGIN

static const size_t	ARRAY_CAPACITY = 256

Protected Member Functions inherited from DynProgProb
virtual Int4	getArrayPos (Int4 value_) const

virtual Int4	getValueEnd () const

void	reserve (size_t arrayCapacity_)

virtual size_t &	lgetStep ()

virtual double **	lgetArray ()

virtual size_t &	lgetArrayCapacity ()

virtual Int4 &	lgetValueBegin ()

virtual Int4 &	lgetValueLower ()

virtual Int4 &	lgetValueUpper ()

Detailed Description

Definition at line 51 of file njn_dynprogproblim.hpp.

Constructor & Destructor Documentation

◆ DynProgProbLim() [1/2]

DynProgProbLim::DynProgProbLim	(	ValueFct *	valueFct_ = `0`,
		size_t	dimInputProb_ = `0`,
		const double *	inputProb_ = `0`,
		Int4	valueLower_ = `0`,
		Int4	valueUpper_ = `0`,
		const double *	prob_ = `0`
	)

inline

Definition at line 73 of file njn_dynprogproblim.hpp.

◆ DynProgProbLim() [2/2]

DynProgProbLim::DynProgProbLim ( const DynProgProbLim & dynProgProbLim_ )

inline

Definition at line 89 of file njn_dynprogproblim.hpp.

◆ ~DynProgProbLim()

virtual DynProgProbLim::~DynProgProbLim ( )

inlinevirtual

Definition at line 94 of file njn_dynprogproblim.hpp.

Member Function Documentation

◆ clear() [1/3]

virtual void DynProgProbLim::clear ( void )

inlinevirtual

Reimplemented from DynProgProb.

Definition at line 173 of file njn_dynprogproblim.hpp.

References clear().

Referenced by clear().

◆ clear() [2/3]

virtual void DynProgProbLim::clear	(	Int4	valueBegin_,
		size_t	arrayCapacity_
	)

inlinevirtual

Reimplemented from DynProgProb.

Definition at line 166 of file njn_dynprogproblim.hpp.

References DynProgProb::clear().

◆ clear() [3/3]

virtual void DynProgProbLim::clear	(	Int4	valueLower_,
		Int4	valueUpper_ = `0`,
		const double *	prob_ = `0`
	)

inlinevirtual

Reimplemented from DynProgProb.

Definition at line 154 of file njn_dynprogproblim.hpp.

References DynProgProb::clear().

◆ copy() [1/4]

virtual void DynProgProbLim::copy ( const DynProgProb & dynProgProb_ )

inlinevirtual

Reimplemented from DynProgProb.

Definition at line 123 of file njn_dynprogproblim.hpp.

◆ copy() [2/4]

virtual void DynProgProbLim::copy	(	const DynProgProb &	dynProgProb_,
		double	probLost_
	)

inlinevirtual

Definition at line 114 of file njn_dynprogproblim.hpp.

References DynProgProb::copy().

◆ copy() [3/4]

virtual void DynProgProbLim::copy ( const DynProgProbLim & dynProgProbLim_ )

inlinevirtual

Definition at line 109 of file njn_dynprogproblim.hpp.

References copy(), and getProbLost().

◆ copy() [4/4]

virtual void DynProgProbLim::copy	(	size_t	step_,
		const double const	array_,
		size_t	arrayCapacity_,
		Int4	valueBegin_ = `0`,
		Int4	valueLower_ = `0`,
		Int4	valueUpper_ = `0`,
		ValueFct *	valueFct_ = `0`,
		size_t	dimInputProb_ = `0`,
		const double *	inputProb_ = `0`
	)

inlinevirtual

Reimplemented from DynProgProb.

Definition at line 129 of file njn_dynprogproblim.hpp.

◆ getArray()

virtual const double* const* DynProgProb::getArray

inline

Definition at line 175 of file njn_dynprogprob.hpp.

Referenced by reserve(), setValueBegin(), and update().

◆ getArrayCapacity()

virtual size_t DynProgProb::getArrayCapacity

inline

Definition at line 176 of file njn_dynprogprob.hpp.

Referenced by reserve(), setLimits(), setValueBegin(), and update().

◆ getArrayPos()

virtual Int4 DynProgProb::getArrayPos

inlineprivate

Definition at line 216 of file njn_dynprogprob.hpp.

Referenced by update().

◆ getDimInputProb()

virtual size_t DynProgProb::getDimInputProb

inline

Definition at line 182 of file njn_dynprogprob.hpp.

Referenced by update().

◆ getInputProb()

virtual const double* DynProgProb::getInputProb

inline

Definition at line 183 of file njn_dynprogprob.hpp.

Referenced by update().

◆ getProb()

virtual double DynProgProb::getProb

inline

Definition at line 164 of file njn_dynprogprob.hpp.

References _ASSERT.

Referenced by descendingLadderEpochRepeat(), and setLimits().

◆ getProbLost()

virtual double DynProgProbLim::getProbLost ( ) const

inlinevirtual

Definition at line 189 of file njn_dynprogproblim.hpp.

Referenced by copy(), and descendingLadderEpochRepeat().

◆ getStep()

virtual size_t DynProgProb::getStep

inline

Definition at line 173 of file njn_dynprogprob.hpp.

Referenced by update().

◆ getValueBegin()

virtual Int4 DynProgProb::getValueBegin

inline

Definition at line 177 of file njn_dynprogprob.hpp.

Referenced by setValueBegin(), and update().

◆ getValueEnd()

virtual Int4 DynProgProb::getValueEnd

inlineprivate

Definition at line 221 of file njn_dynprogprob.hpp.

Referenced by update().

◆ getValueFct()

virtual ValueFct* DynProgProb::getValueFct

inline

Definition at line 181 of file njn_dynprogprob.hpp.

Referenced by update().

◆ getValueLower()

virtual Int4 DynProgProb::getValueLower

inline

Definition at line 178 of file njn_dynprogprob.hpp.

Referenced by setLimits(), and update().

◆ getValueUpper()

virtual Int4 DynProgProb::getValueUpper

inline

Definition at line 179 of file njn_dynprogprob.hpp.

Referenced by descendingLadderEpochRepeat(), setLimits(), and update().

◆ operator=() [1/2]

virtual DynProgProbLim& DynProgProbLim::operator= ( const DynProgProb & dynProgProb_ )

inlinevirtual

Reimplemented from DynProgProb.

Definition at line 103 of file njn_dynprogproblim.hpp.

◆ operator=() [2/2]

virtual DynProgProbLim& DynProgProbLim::operator= ( const DynProgProbLim & dynProgProbLim_ )

inlinevirtual

Definition at line 96 of file njn_dynprogproblim.hpp.

References copy().

◆ reserve()

void DynProgProbLim::reserve ( size_t arrayCapacity_ )

privatevirtual

Definition at line 81 of file njn_dynprogproblim.cpp.

References assert, getArray(), getArrayCapacity(), i, DynProgProb::lgetArray(), DynProgProb::lgetArrayCapacity(), memCpy(), and DynProgProb::reserve().

Referenced by setLimits().

◆ setInput()

void DynProgProb::setInput

Definition at line 155 of file njn_dynprogprob.cpp.

◆ setLimits()

void DynProgProbLim::setLimits	(	Int4	valueBegin_ = `0`,
		Int4	valueEnd_ = `0`
	)

virtual

Definition at line 47 of file njn_dynprogproblim.cpp.

References assert, d_probLost, getArrayCapacity(), getProb(), getValueLower(), getValueUpper(), reserve(), setValueBegin(), and rapidjson::value.

◆ setValueBegin()

void DynProgProbLim::setValueBegin ( Int4 valueBegin_ )

privatevirtual

Reimplemented from DynProgProb.

Definition at line 110 of file njn_dynprogproblim.cpp.

References assert, getArray(), getArrayCapacity(), getValueBegin(), i, DynProgProb::lgetArray(), DynProgProb::lgetValueBegin(), memCpy(), memZero(), and DynProgProb::setValueBegin().

Referenced by setLimits().

◆ setValueFct()

virtual void DynProgProb::setValueFct

inline

Definition at line 150 of file njn_dynprogprob.hpp.

Referenced by descendingLadderEpochRepeat().

◆ update()

void DynProgProbLim::update ( )

virtual

Reimplemented from DynProgProb.

Definition at line 142 of file njn_dynprogproblim.cpp.

References assert, d_probLost, getArray(), getArrayCapacity(), getArrayPos(), getDimInputProb(), getInputProb(), getStep(), getValueBegin(), getValueEnd(), getValueFct(), getValueLower(), getValueUpper(), i, kMax_I4, kMin_I4, DynProgProb::lgetArray(), DynProgProb::lgetStep(), DynProgProb::lgetValueLower(), DynProgProb::lgetValueUpper(), memZero(), prob(), and rapidjson::value.

Referenced by descendingLadderEpochRepeat().

Member Data Documentation

◆ d_probLost

double DynProgProbLim::d_probLost

private

Definition at line 193 of file njn_dynprogproblim.hpp.

Referenced by setLimits(), and update().

The documentation for this class was generated from the following files:

src/algo/blast/gumbel_params/njn_dynprogproblim.hpp
src/algo/blast/gumbel_params/njn_dynprogproblim.cpp

Public Member Functions

Private Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ DynProgProbLim() [1/2]

◆ DynProgProbLim() [2/2]

◆ ~DynProgProbLim()

Member Function Documentation

◆ clear() [1/3]

◆ clear() [2/3]

◆ clear() [3/3]

◆ copy() [1/4]

◆ copy() [2/4]

◆ copy() [3/4]

◆ copy() [4/4]

◆ getArray()

◆ getArrayCapacity()

◆ getArrayPos()

◆ getDimInputProb()

◆ getInputProb()

◆ getProb()

◆ getProbLost()

◆ getStep()

◆ getValueBegin()

◆ getValueEnd()

◆ getValueFct()

◆ getValueLower()

◆ getValueUpper()

◆ operator=() [1/2]

◆ operator=() [2/2]

◆ reserve()

◆ setInput()

◆ setLimits()

◆ setValueBegin()

◆ setValueFct()

◆ update()

Member Data Documentation

◆ d_probLost