Search Toolkit Book for CSeq_annot_SplitInfo

#include <objmgr/split/object_splitinfo.hpp>

Inheritance diagram for CSeq_annot_SplitInfo:

Collaboration diagram for CSeq_annot_SplitInfo:

Public Types
typedef vector< CRef< CLocObjects_SplitInfo > >	TObjects

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...

Public Member Functions
	CSeq_annot_SplitInfo (void)

void	SetSeq_annot (const CSeq_annot &annot, const SSplitterParams &params, const CBlobSplitterImpl &impl)

void	Add (const CAnnotObject_SplitInfo &obj)

CNcbiOstream &	Print (CNcbiOstream &out) const

TAnnotPriority	GetPriority (void) const

TAnnotPriority	GetPriority (const CAnnotObject_SplitInfo &obj) const

int	Compare (const CSeq_annot_SplitInfo &other) const

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...

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

Static Public Member Functions
static CAnnotName	GetName (const CSeq_annot &annot)

static size_t	CountAnnotObjects (const CSeq_annot &annot)

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)

Public Attributes
CConstRef< CSeq_annot >	m_Src_annot

CAnnotName	m_Name

TAnnotPriority	m_TopPriority

TAnnotPriority	m_NamePriority

TObjects	m_Objects

CSize	m_Size

CSeqsRange	m_Location

Additional Inherited Members
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

Definition at line 178 of file object_splitinfo.hpp.

Member Typedef Documentation

◆ TObjects

typedef vector< CRef<CLocObjects_SplitInfo> > CSeq_annot_SplitInfo::TObjects

Definition at line 181 of file object_splitinfo.hpp.

Constructor & Destructor Documentation

◆ CSeq_annot_SplitInfo()

CSeq_annot_SplitInfo::CSeq_annot_SplitInfo ( void )

Definition at line 110 of file object_splitinfo.cpp.

Member Function Documentation

◆ Add()

void CSeq_annot_SplitInfo::Add ( const CAnnotObject_SplitInfo & obj )

Definition at line 332 of file object_splitinfo.cpp.

References CSeqsRange::Add(), CAnnotObject_SplitInfo::GetPriority(), CAnnotObject_SplitInfo::m_Location, m_Location, m_Objects, m_TopPriority, max(), and min().

Referenced by SetSeq_annot().

◆ Compare()

int CSeq_annot_SplitInfo::Compare ( const CSeq_annot_SplitInfo & other ) const

Definition at line 266 of file object_splitinfo.cpp.

References CSeqsRange::Compare(), CSize::Compare(), m_Location, m_Size, and m_Src_annot.

Referenced by SAnnotPiece::operator<().

◆ CountAnnotObjects()

size_t CSeq_annot_SplitInfo::CountAnnotObjects ( const CSeq_annot & annot )

static

Definition at line 248 of file object_splitinfo.cpp.

References _ASSERT, CSeq_annot_Base::C_Data::e_Align, CSeq_annot_Base::C_Data::e_Ftable, CSeq_annot_Base::C_Data::e_Graph, CSeq_annot_Base::C_Data::e_Seq_table, CSeq_annot_Base::C_Data::GetAlign(), CSeq_annot_Base::GetData(), CSeq_annot_Base::C_Data::GetFtable(), CSeq_annot_Base::C_Data::GetGraph(), and CSeq_annot_Base::C_Data::Which().

Referenced by CBlobSplitterImpl::CountAnnotObjects(), and CAnnotPieces::CountAnnotObjects().

◆ GetName()

CAnnotName CSeq_annot_SplitInfo::GetName ( const CSeq_annot & annot )

static

◆ GetPriority() [1/2]

TAnnotPriority CSeq_annot_SplitInfo::GetPriority ( const CAnnotObject_SplitInfo & obj ) const

Definition at line 237 of file object_splitinfo.cpp.

References eAnnotPriority_max, CAnnotObject_SplitInfo::GetPriority(), and m_NamePriority.

◆ GetPriority() [2/2]

TAnnotPriority CSeq_annot_SplitInfo::GetPriority ( void ) const

Definition at line 222 of file object_splitinfo.cpp.

References eAnnotPriority_max, eAnnotPriority_skeleton, m_NamePriority, and m_TopPriority.

◆ Print()

CNcbiOstream & CSeq_annot_SplitInfo::Print ( CNcbiOstream & out ) const

Definition at line 345 of file object_splitinfo.cpp.

References CAnnotName::GetName(), CAnnotName::IsNamed(), ITERATE, m_Name, m_Objects, m_Size, NcbiEndl, and out().

◆ SetSeq_annot()

void CSeq_annot_SplitInfo::SetSeq_annot	(	const CSeq_annot &	annot,
		const SSplitterParams &	params,
		const CBlobSplitterImpl &	impl
	)

Member Data Documentation

◆ m_Location

CSeqsRange CSeq_annot_SplitInfo::m_Location

Definition at line 208 of file object_splitinfo.hpp.

Referenced by Add(), and Compare().

◆ m_Name

CAnnotName CSeq_annot_SplitInfo::m_Name

Definition at line 201 of file object_splitinfo.hpp.

Referenced by Print(), and SetSeq_annot().

◆ m_NamePriority

TAnnotPriority CSeq_annot_SplitInfo::m_NamePriority

Definition at line 204 of file object_splitinfo.hpp.

Referenced by GetPriority(), and SetSeq_annot().

◆ m_Objects

TObjects CSeq_annot_SplitInfo::m_Objects

Definition at line 205 of file object_splitinfo.hpp.

Referenced by Add(), and Print().

◆ m_Size

CSize CSeq_annot_SplitInfo::m_Size

Definition at line 207 of file object_splitinfo.hpp.

Referenced by Compare(), Print(), and SetSeq_annot().

◆ m_Src_annot

CConstRef<CSeq_annot> CSeq_annot_SplitInfo::m_Src_annot

Definition at line 200 of file object_splitinfo.hpp.

Referenced by SChunkInfo::Add(), Compare(), CAnnotPieces::CountAnnotObjects(), and SetSeq_annot().

◆ m_TopPriority

TAnnotPriority CSeq_annot_SplitInfo::m_TopPriority

Definition at line 203 of file object_splitinfo.hpp.

Referenced by Add(), GetPriority(), and SetSeq_annot().

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

include/objmgr/split/object_splitinfo.hpp
src/objmgr/split/object_splitinfo.cpp

Public Types

Public Member Functions

Static Public Member Functions

Public Attributes

Additional Inherited Members