Search Toolkit Book for CPacked_seqpnt

#include <objects/seqloc/Packed_seqpnt.hpp>

Inheritance diagram for CPacked_seqpnt:

Collaboration diagram for CPacked_seqpnt:

Public Member Functions
	CPacked_seqpnt (void)

	CPacked_seqpnt (TId &id, const TPoints &points, TStrand strand=eNa_strand_unknown)

	~CPacked_seqpnt (void)

bool	IsPartialStart (ESeqLocExtremes ext) const

bool	IsPartialStop (ESeqLocExtremes ext) const

void	SetPartialStart (bool val, ESeqLocExtremes ext)

void	SetPartialStop (bool val, ESeqLocExtremes ext)

bool	IsTruncatedStart (ESeqLocExtremes ext) const
	check if parts of the seq-loc are missing More...

bool	IsTruncatedStop (ESeqLocExtremes ext) const

void	SetTruncatedStart (bool val, ESeqLocExtremes ext)
	set / remove e_Lim fuzz on start or stop (tl/tr - indicating removed parts of the seq-loc) More...

void	SetTruncatedStop (bool val, ESeqLocExtremes ext)

void	AddPoint (TSeqPos point)

void	AddPoints (const TPoints &points)

TSeqPos	GetStart (ESeqLocExtremes ext) const

TSeqPos	GetStop (ESeqLocExtremes ext) const

void	FlipStrand (void)

Public Member Functions inherited from CPacked_seqpnt_Base
	CPacked_seqpnt_Base (void)

virtual	~CPacked_seqpnt_Base (void)

	DECLARE_INTERNAL_TYPE_INFO ()

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

bool	CanGetStrand (void) const
	Check if it is safe to call GetStrand method. More...

void	ResetStrand (void)
	Reset Strand data member. More...

TStrand	GetStrand (void) const
	Get the Strand member data. More...

void	SetStrand (TStrand value)
	Assign a value to Strand data member. More...

TStrand &	SetStrand (void)
	Assign a value to Strand data member. More...

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

bool	CanGetId (void) const
	Check if it is safe to call GetId method. More...

void	ResetId (void)
	Reset Id data member. More...

const TId &	GetId (void) const
	Get the Id member data. More...

void	SetId (TId &value)
	Assign a value to Id data member. More...

TId &	SetId (void)
	Assign a value to Id data member. More...

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

bool	CanGetFuzz (void) const
	Check if it is safe to call GetFuzz method. More...

void	ResetFuzz (void)
	Reset Fuzz data member. More...

const TFuzz &	GetFuzz (void) const
	Get the Fuzz member data. More...

void	SetFuzz (TFuzz &value)
	Assign a value to Fuzz data member. More...

TFuzz &	SetFuzz (void)
	Assign a value to Fuzz data member. More...

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

bool	CanGetPoints (void) const
	Check if it is safe to call GetPoints method. More...

void	ResetPoints (void)
	Reset Points data member. More...

const TPoints &	GetPoints (void) const
	Get the Points member data. More...

TPoints &	SetPoints (void)
	Assign a value to Points 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 CPacked_seqpnt_Base	Tparent

Private Member Functions
	CPacked_seqpnt (const CPacked_seqpnt &value)

CPacked_seqpnt &	operator= (const CPacked_seqpnt &value)

bool	x_IsMinusStrand (void) const

Additional Inherited Members
Public Types inherited from CPacked_seqpnt_Base
enum class	E_memberIndex { e__allMandatory = 0 , e_strand , e_id , e_fuzz , e_points }

typedef ENa_strand	TStrand

typedef CSeq_id	TId

typedef CInt_fuzz	TFuzz

typedef vector< TSeqPos >	TPoints

typedef Tparent::CMemberIndex< E_memberIndex, 5 >	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...