#include <algo/gnomon/Exon_params.hpp>

Inheritance diagram for CExon_params:

Collaboration diagram for CExon_params:

Public Member Functions
	CExon_params (void)

	~CExon_params (void)

Public Member Functions inherited from CExon_params_Base
	CExon_params_Base (void)

virtual	~CExon_params_Base (void)

	DECLARE_INTERNAL_TYPE_INFO ()

bool	IsSetFirst_exon_phase_probabilities (void) const
	3 elements (per end phase) Check if a value has been assigned to First_exon_phase_probabilities data member. More...

bool	CanGetFirst_exon_phase_probabilities (void) const
	Check if it is safe to call GetFirst_exon_phase_probabilities method. More...

void	ResetFirst_exon_phase_probabilities (void)
	Reset First_exon_phase_probabilities data member. More...

const TFirst_exon_phase_probabilities &	GetFirst_exon_phase_probabilities (void) const
	Get the First_exon_phase_probabilities member data. More...

TFirst_exon_phase_probabilities &	SetFirst_exon_phase_probabilities (void)
	Assign a value to First_exon_phase_probabilities data member. More...

bool	IsSetInternal_exon_phase_probabilities (void) const
	3*3 elements (begin phase x end phase) Check if a value has been assigned to Internal_exon_phase_probabilities data member. More...

bool	CanGetInternal_exon_phase_probabilities (void) const
	Check if it is safe to call GetInternal_exon_phase_probabilities method. More...

void	ResetInternal_exon_phase_probabilities (void)
	Reset Internal_exon_phase_probabilities data member. More...

const TInternal_exon_phase_probabilities &	GetInternal_exon_phase_probabilities (void) const
	Get the Internal_exon_phase_probabilities member data. More...

TInternal_exon_phase_probabilities &	SetInternal_exon_phase_probabilities (void)
	Assign a value to Internal_exon_phase_probabilities data member. More...

bool	IsSetFirst_exon_length (void) const
	Check if a value has been assigned to First_exon_length data member. More...

bool	CanGetFirst_exon_length (void) const
	Check if it is safe to call GetFirst_exon_length method. More...

void	ResetFirst_exon_length (void)
	Reset First_exon_length data member. More...

const TFirst_exon_length &	GetFirst_exon_length (void) const
	Get the First_exon_length member data. More...

void	SetFirst_exon_length (TFirst_exon_length &value)
	Assign a value to First_exon_length data member. More...

TFirst_exon_length &	SetFirst_exon_length (void)
	Assign a value to First_exon_length data member. More...

bool	IsSetInternal_exon_length (void) const
	Check if a value has been assigned to Internal_exon_length data member. More...

bool	CanGetInternal_exon_length (void) const
	Check if it is safe to call GetInternal_exon_length method. More...

void	ResetInternal_exon_length (void)
	Reset Internal_exon_length data member. More...

const TInternal_exon_length &	GetInternal_exon_length (void) const
	Get the Internal_exon_length member data. More...

void	SetInternal_exon_length (TInternal_exon_length &value)
	Assign a value to Internal_exon_length data member. More...

TInternal_exon_length &	SetInternal_exon_length (void)
	Assign a value to Internal_exon_length data member. More...

bool	IsSetLast_exon_length (void) const
	Check if a value has been assigned to Last_exon_length data member. More...

bool	CanGetLast_exon_length (void) const
	Check if it is safe to call GetLast_exon_length method. More...

void	ResetLast_exon_length (void)
	Reset Last_exon_length data member. More...

const TLast_exon_length &	GetLast_exon_length (void) const
	Get the Last_exon_length member data. More...

void	SetLast_exon_length (TLast_exon_length &value)
	Assign a value to Last_exon_length data member. More...

TLast_exon_length &	SetLast_exon_length (void)
	Assign a value to Last_exon_length data member. More...

bool	IsSetSingle_exon_length (void) const
	Check if a value has been assigned to Single_exon_length data member. More...

bool	CanGetSingle_exon_length (void) const
	Check if it is safe to call GetSingle_exon_length method. More...

void	ResetSingle_exon_length (void)
	Reset Single_exon_length data member. More...

const TSingle_exon_length &	GetSingle_exon_length (void) const
	Get the Single_exon_length member data. More...

void	SetSingle_exon_length (TSingle_exon_length &value)
	Assign a value to Single_exon_length data member. More...

TSingle_exon_length &	SetSingle_exon_length (void)
	Assign a value to Single_exon_length data member. More...

virtual void	Reset (void)
	Reset the whole object. More...

Public Member Functions inherited from CSerialObject
	CSerialObject (void)

virtual	~CSerialObject (void)

virtual const CTypeInfo *	GetThisTypeInfo (void) const =0

virtual void	Assign (const CSerialObject &source, ESerialRecursionMode how=eRecursive)
	Set object to copy of another one. More...

virtual bool	Equals (const CSerialObject &object, ESerialRecursionMode how=eRecursive) const
	Check if both objects contain the same values. More...

virtual void	DebugDump (CDebugDumpContext ddc, unsigned int depth) const
	Define method for dumping debug information. More...

void	ThrowUnassigned (TMemberIndex index) const

void	ThrowUnassigned (TMemberIndex index, const char *file_name, int file_line) const

bool	HasNamespaceName (void) const
	Check if object data type has namespace name. More...

const string &	GetNamespaceName (void) const
	Get namespace name. More...

bool	HasNamespacePrefix (void) const
	Check if data type has namespace prefix. More...

const string &	GetNamespacePrefix (void) const
	Get namespace prefix. More...

Public Member Functions inherited from CObject
	CObject (void)
	Constructor. More...

	CObject (const CObject &src)
	Copy constructor. More...

virtual	~CObject (void)
	Destructor. More...

CObject &	operator= (const CObject &src) THROWS_NONE
	Assignment operator. More...

bool	CanBeDeleted (void) const THROWS_NONE
	Check if object can be deleted. More...

bool	IsAllocatedInPool (void) const THROWS_NONE
	Check if object is allocated in memory pool (not system heap) More...

bool	Referenced (void) const THROWS_NONE
	Check if object is referenced. More...

bool	ReferencedOnlyOnce (void) const THROWS_NONE
	Check if object is referenced only once. More...

void	AddReference (void) const
	Add reference to object. More...

void	RemoveReference (void) const
	Remove reference to object. More...

void	ReleaseReference (void) const
	Remove reference without deleting object. More...

virtual void	DoNotDeleteThisObject (void)
	Mark this object as not allocated in heap – do not delete this object. More...

virtual void	DoDeleteThisObject (void)
	Mark this object as allocated in heap – object can be deleted. More...

void *	operator new (size_t size)
	Define new operator for memory allocation. More...

void *	operator new[] (size_t size)
	Define new[] operator for 'array' memory allocation. More...

void	operator delete (void *ptr)
	Define delete operator for memory deallocation. More...

void	operator delete[] (void *ptr)
	Define delete[] operator for memory deallocation. More...

void *	operator new (size_t size, void *place)
	Define new operator. More...

void	operator delete (void ptr, void place)
	Define delete operator. More...

void *	operator new (size_t size, CObjectMemoryPool *place)
	Define new operator using memory pool. More...

void	operator delete (void ptr, CObjectMemoryPool place)
	Define delete operator. More...

Public Member Functions inherited from CDebugDumpable
	CDebugDumpable (void)

virtual	~CDebugDumpable (void)

void	DebugDumpText (ostream &out, const string &bundle, unsigned int depth) const

void	DebugDumpFormat (CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) const

void	DumpToConsole (void) const

Private Types
typedef CExon_params_Base	Tparent

Private Member Functions
	CExon_params (const CExon_params &value)

CExon_params &	operator= (const CExon_params &value)

Additional Inherited Members
Public Types inherited from CExon_params_Base
enum class	E_memberIndex { e__allMandatory = 0 , e_first_exon_phase_probabilities , e_internal_exon_phase_probabilities , e_first_exon_length , e_internal_exon_length , e_last_exon_length , e_single_exon_length }

typedef list< double >	TFirst_exon_phase_probabilities

typedef list< double >	TInternal_exon_phase_probabilities

typedef CLength_distribution_params	TFirst_exon_length

typedef CLength_distribution_params	TInternal_exon_length

typedef CLength_distribution_params	TLast_exon_length

typedef CLength_distribution_params	TSingle_exon_length

typedef Tparent::CMemberIndex< E_memberIndex, 7 >	TmemberIndex

Public Types inherited from CObject
enum	EAllocFillMode { eAllocFillNone = 1 , eAllocFillZero , eAllocFillPattern }
	Control filling of newly allocated memory. More...

typedef CObjectCounterLocker	TLockerType
	Default locker type for CRef. More...

typedef atomic< Uint8 >	TCounter
	Counter type is CAtomiCounter. More...

typedef Uint8	TCount
	Alias for value type of counter. More...

Static Public Member Functions inherited from CSerialObject
static void	SetVerifyDataThread (ESerialVerifyData verify)

static void	SetVerifyDataGlobal (ESerialVerifyData verify)

static string	UnassignedString (void)

static CStringUTF8	UnassignedStringUTF8 (void)

static char	UnassignedByte (void)

Static Public Member Functions inherited from CObject
static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (void)
	Define method to throw null pointer exception. More...

static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (const type_info &type)

static EAllocFillMode	GetAllocFillMode (void)

static void	SetAllocFillMode (EAllocFillMode mode)

static void	SetAllocFillMode (const string &value)
	Set mode from configuration parameter value. More...

Static Public Member Functions inherited from CDebugDumpable
static void	EnableDebugDump (bool on)

Static Public Attributes inherited from CSerialObject
static const char *	ms_UnassignedStr = "<unassigned>"

static const char	ms_UnassignedByte = char(0xcd)

Static Public Attributes inherited from CObject
static const TCount	eCounterBitsCanBeDeleted = 1 << 0
	Define possible object states. More...

static const TCount	eCounterBitsInPlainHeap = 1 << 1
	Heap signature was found. More...

static const TCount	eCounterBitsPlaceMask
	Mask for 'in heap' state flags. More...

static const int	eCounterStep = 1 << 2
	Skip over the "in heap" bits. More...

static const TCount	eCounterValid = TCount(1) << (sizeof(TCount) * 8 - 2)
	Minimal value for valid objects (reference counter is zero) Must be a single bit value. More...

static const TCount	eCounterStateMask
	Valid object, and object in heap. More...

Protected Member Functions inherited from CObject
virtual void	DeleteThis (void)
	Virtual method "deleting" this object. More...

Detailed Description

CExon_params –.

Definition at line 65 of file Exon_params.hpp.

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

include/algo/gnomon/Exon_params.hpp
src/algo/gnomon/Exon_params.cpp

Public Member Functions

Private Types

Private Member Functions

Additional Inherited Members

Detailed Description