Search Toolkit Book for CBiosampleFieldDiff

#include <misc/biosample_util/biosample_util.hpp>

Inheritance diagram for CBiosampleFieldDiff:

Collaboration diagram for CBiosampleFieldDiff:

Public Member Functions
	CBiosampleFieldDiff ()

	CBiosampleFieldDiff (const string &sequence_id, const string &biosample_id, const string &field_name, const string &src_val, const string &sample_val)

	CBiosampleFieldDiff (const string &sequence_id, const string &biosample_id, const CFieldDiff &diff)

	~CBiosampleFieldDiff (void)

void	Print (ncbi::CNcbiOstream &stream, bool show_seq_id=true) const

void	Print (ncbi::CNcbiOstream &stream, const CBiosampleFieldDiff &prev)

void	PrettyPrint (ncbi::CNcbiOstream &stream, size_t keyWidth=20, size_t valueWidth=40) const

const string &	GetSequenceId () const

void	SetSequenceId (const string &id)

const string &	GetFieldName () const

string	GetSrcVal () const

string	GetSampleVal () const

string	GetPureSrcVal () const

string	GetPureSampleVal () const

const string &	GetBioSample () const

int	CompareAllButSequenceID (const CBiosampleFieldDiff &other)

int	Compare (const CBiosampleFieldDiff &other)

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 void	PrintHeader (ncbi::CNcbiOstream &stream, bool show_seq_id=true)

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)

Private Attributes
string	m_SequenceID

string	m_BiosampleID

string	m_FieldName

string	m_SrcVal

string	m_SampleVal

Additional Inherited Members
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 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 79 of file biosample_util.hpp.

Constructor & Destructor Documentation

◆ CBiosampleFieldDiff() [1/3]

CBiosampleFieldDiff::CBiosampleFieldDiff ( )

inline

Definition at line 82 of file biosample_util.hpp.

◆ CBiosampleFieldDiff() [2/3]

CBiosampleFieldDiff::CBiosampleFieldDiff	(	const string &	sequence_id,
		const string &	biosample_id,
		const string &	field_name,
		const string &	src_val,
		const string &	sample_val
	)

inline

Definition at line 83 of file biosample_util.hpp.

◆ CBiosampleFieldDiff() [3/3]

CBiosampleFieldDiff::CBiosampleFieldDiff	(	const string &	sequence_id,
		const string &	biosample_id,
		const CFieldDiff &	diff
	)

inline

Definition at line 86 of file biosample_util.hpp.

◆ ~CBiosampleFieldDiff()

CBiosampleFieldDiff::~CBiosampleFieldDiff ( void )

inline

Definition at line 93 of file biosample_util.hpp.

Member Function Documentation

◆ Compare()

int CBiosampleFieldDiff::Compare ( const CBiosampleFieldDiff & other )

Definition at line 450 of file biosample_util.cpp.

References NStr::CompareCase(), and m_SequenceID.

◆ CompareAllButSequenceID()

int CBiosampleFieldDiff::CompareAllButSequenceID ( const CBiosampleFieldDiff & other )

Definition at line 432 of file biosample_util.cpp.

References NStr::CompareCase(), NStr::CompareNocase(), NStr::EqualNocase(), m_BiosampleID, m_FieldName, and m_SrcVal.

◆ GetBioSample()

const string& CBiosampleFieldDiff::GetBioSample ( ) const

inline

Definition at line 106 of file biosample_util.hpp.

References m_BiosampleID.

◆ GetFieldName()

const string& CBiosampleFieldDiff::GetFieldName ( ) const

inline

Definition at line 101 of file biosample_util.hpp.

References m_FieldName.

◆ GetPureSampleVal()

string CBiosampleFieldDiff::GetPureSampleVal ( ) const

inline

Definition at line 105 of file biosample_util.hpp.

References m_SampleVal.

◆ GetPureSrcVal()

string CBiosampleFieldDiff::GetPureSrcVal ( ) const

inline

Definition at line 104 of file biosample_util.hpp.

References m_SrcVal.

◆ GetSampleVal()

string CBiosampleFieldDiff::GetSampleVal ( ) const

inline

Definition at line 103 of file biosample_util.hpp.

References CBioSource::IsStopWord(), m_SampleVal, and string.

◆ GetSequenceId()

const string& CBiosampleFieldDiff::GetSequenceId ( ) const

inline

Definition at line 99 of file biosample_util.hpp.

References m_SequenceID.

◆ GetSrcVal()

string CBiosampleFieldDiff::GetSrcVal ( ) const

inline

Definition at line 102 of file biosample_util.hpp.

References CBioSource::IsStopWord(), m_SrcVal, and string.

◆ PrettyPrint()

void CBiosampleFieldDiff::PrettyPrint	(	ncbi::CNcbiOstream &	stream,
		size_t	keyWidth = `20`,
		size_t	valueWidth = `40`
	)		const

Definition at line 392 of file biosample_util.cpp.

References sPrintField(), and string.

◆ Print() [1/2]

void CBiosampleFieldDiff::Print	(	ncbi::CNcbiOstream &	stream,
		bool	show_seq_id = `true`
	)		const

◆ Print() [2/2]

void CBiosampleFieldDiff::Print	(	ncbi::CNcbiOstream &	stream,
		const CBiosampleFieldDiff &	prev
	)

Definition at line 413 of file biosample_util.cpp.

References NStr::EqualNocase(), NStr::IsBlank(), CBioSource::IsStopWord(), prev(), and Print().

◆ PrintHeader()

void CBiosampleFieldDiff::PrintHeader	(	ncbi::CNcbiOstream &	stream,
		bool	show_seq_id = `true`
	)

static

Definition at line 359 of file biosample_util.cpp.

◆ SetSequenceId()

void CBiosampleFieldDiff::SetSequenceId ( const string & id )

inline

Definition at line 100 of file biosample_util.hpp.

References m_SequenceID.

Member Data Documentation

◆ m_BiosampleID

string CBiosampleFieldDiff::m_BiosampleID

private

Definition at line 113 of file biosample_util.hpp.

Referenced by CompareAllButSequenceID(), and GetBioSample().

◆ m_FieldName

string CBiosampleFieldDiff::m_FieldName

private

Definition at line 114 of file biosample_util.hpp.

Referenced by CompareAllButSequenceID(), and GetFieldName().

◆ m_SampleVal

string CBiosampleFieldDiff::m_SampleVal

private

Definition at line 116 of file biosample_util.hpp.

Referenced by GetPureSampleVal(), and GetSampleVal().

◆ m_SequenceID

string CBiosampleFieldDiff::m_SequenceID

private

Definition at line 112 of file biosample_util.hpp.

Referenced by Compare(), GetSequenceId(), and SetSequenceId().

◆ m_SrcVal

string CBiosampleFieldDiff::m_SrcVal

private

Definition at line 115 of file biosample_util.hpp.

Referenced by CompareAllButSequenceID(), GetPureSrcVal(), and GetSrcVal().

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

include/misc/biosample_util/biosample_util.hpp
src/misc/biosample_util/biosample_util.cpp

Public Member Functions

Static Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ CBiosampleFieldDiff() [1/3]

◆ CBiosampleFieldDiff() [2/3]

◆ CBiosampleFieldDiff() [3/3]

◆ ~CBiosampleFieldDiff()

Member Function Documentation

◆ Compare()

◆ CompareAllButSequenceID()

◆ GetBioSample()

◆ GetFieldName()

◆ GetPureSampleVal()

◆ GetPureSrcVal()

◆ GetSampleVal()

◆ GetSequenceId()

◆ GetSrcVal()

◆ PrettyPrint()

◆ Print() [1/2]

◆ Print() [2/2]

◆ PrintHeader()

◆ SetSequenceId()

Member Data Documentation

◆ m_BiosampleID

◆ m_FieldName

◆ m_SampleVal

◆ m_SequenceID

◆ m_SrcVal