#include <sra/data_loaders/snp/impl/snploader_impl.hpp>

Inheritance diagram for CSNPBlobId:

Collaboration diagram for CSNPBlobId:

Public Member Functions
	CSNPBlobId (const CTempString &str)

	CSNPBlobId (const CSNPFileInfo &file, const CSeq_id_Handle &seq_id, size_t filter_index)

	CSNPBlobId (const CSNPDbSeqIterator &seq, size_t filter_index)

	CSNPBlobId (const CSNPFileInfo &file, size_t seq_index, size_t filter_index)

	~CSNPBlobId (void)

string	ToString (void) const
	Get string representation of blob id. More...

void	FromString (CTempString str)

bool	FromSatString (CTempString str)

bool	operator< (const CBlobId &id) const

bool	operator== (const CBlobId &id) const

bool	IsSatId (void) const

Int4	GetSat (void) const

Int4	GetSubSat (void) const

Int4	GetSatKey (void) const

bool	IsValidSat (void) const

bool	IsValidSubSat (void) const

bool	IsValidSatKey (void) const

string	GetSatNA (void) const

int	GetSatBase (void) const

int	GetSubSatBase (void) const

size_t	GetNAIndex (void) const

size_t	GetNAVersion (void) const

size_t	GetSeqIndex (void) const

size_t	GetFilterIndex (void) const

void	SetSatNA (CTempString acc)

void	SetNAIndex (size_t na_index)

void	SetNAVersion (size_t na_version)

void	SetSeqAndFilterIndex (size_t seq_index, size_t filter_index)

CSeq_id_Handle	GetSeqId (void) const

string	GetAccession (void) const

bool	IsPrimaryTrack () const

bool	IsPrimaryTrackGraph () const

bool	IsPrimaryTrackFeat () const

void	SetPrimaryTrackFeat ()

void	SetPrimaryTrackGraph ()

	CSNPBlobId (const CTempString &str)

	CSNPBlobId (const CSNPFileInfo &file, const objects::CSeq_id_Handle &seq_id, size_t filter_index)

	CSNPBlobId (const objects::CSNPDbSeqIterator &seq, size_t filter_index)

	CSNPBlobId (const CSNPFileInfo &file, size_t seq_index, size_t filter_index)

	~CSNPBlobId (void)

string	ToString (void) const
	Get string representation of blob id. More...

void	FromString (CTempString str)

bool	FromSatString (CTempString str)

bool	IsSatId (void) const

Int4	GetSat (void) const

Int4	GetSubSat (void) const

Int4	GetSatKey (void) const

bool	IsValidSat (void) const

bool	IsValidSubSat (void) const

bool	IsValidSatKey (void) const

string	GetSatNA (void) const

int	GetSatBase (void) const

int	GetSubSatBase (void) const

size_t	GetNAIndex (void) const

size_t	GetNAVersion (void) const

size_t	GetSeqIndex (void) const

size_t	GetFilterIndex (void) const

void	SetSatNA (CTempString acc)

void	SetNAIndex (size_t na_index)

void	SetNAVersion (size_t na_version)

void	SetSeqAndFilterIndex (size_t seq_index, size_t filter_index)

objects::CSeq_id_Handle	GetSeqId (void) const

string	GetAccession (void) const

bool	IsPrimaryTrack () const

bool	IsPrimaryTrackGraph () const

bool	IsPrimaryTrackFeat () const

void	SetPrimaryTrackFeat ()

void	SetPrimaryTrackGraph ()

Public Member Functions inherited from CBlobId
virtual	~CBlobId (void)

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 bool	IsValidNAIndex (size_t index)

static bool	IsValidNAVersion (size_t version)

static bool	IsValidNA (pair< size_t, size_t > na)

static bool	IsValidSeqIndex (size_t seq_index)

static bool	IsValidFilterIndex (size_t filter_index)

static pair< size_t, size_t >	ParseNA (CTempString acc)

static bool	IsValidNA (CTempString acc)

static bool	IsValidNAIndex (size_t index)

static bool	IsValidNAVersion (size_t version)

static bool	IsValidNA (pair< size_t, size_t > na)

static bool	IsValidSeqIndex (size_t seq_index)

static bool	IsValidFilterIndex (size_t filter_index)

static pair< size_t, size_t >	ParseNA (CTempString acc)

static bool	IsValidNA (CTempString acc)

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)

Protected Attributes
Uint4	m_NAIndex

Uint2	m_NAVersion

bool	m_IsPrimaryTrack

bool	m_IsPrimaryTrackGraph

Uint4	m_SeqIndex

Uint4	m_FilterIndex

string	m_Accession

CSeq_id_Handle	m_SeqId

objects::CSeq_id_Handle	m_SeqId

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 CBlobId
bool	LessByTypeId (const CBlobId &id2) const

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

Detailed Description

Definition at line 54 of file snploader_impl.hpp.

Constructor & Destructor Documentation

◆ CSNPBlobId() [1/8]

CSNPBlobId::CSNPBlobId ( const CTempString & str )

explicit

Definition at line 170 of file snp_client.cpp.

References FromString(), and str().

◆ CSNPBlobId() [2/8]

CSNPBlobId::CSNPBlobId	(	const CSNPFileInfo &	file,
		const CSeq_id_Handle &	seq_id,
		size_t	filter_index
	)

Definition at line 176 of file snp_client.cpp.

◆ CSNPBlobId() [3/8]

CSNPBlobId::CSNPBlobId	(	const CSNPDbSeqIterator &	seq,
		size_t	filter_index
	)

Definition at line 209 of file snp_client.cpp.

References CSNPDbSeqIterator::GetDb(), CSNPDb_Impl::GetDbPath(), CSNPDbSeqIterator::GetVDBSeqIndex(), SetSatNA(), and SetSeqAndFilterIndex().

◆ CSNPBlobId() [4/8]

CSNPBlobId::CSNPBlobId	(	const CSNPFileInfo &	file,
		size_t	seq_index,
		size_t	filter_index
	)

Definition at line 190 of file snp_client.cpp.

References file, m_Accession, SetSatNA(), and SetSeqAndFilterIndex().

◆ ~CSNPBlobId() [1/2]

CSNPBlobId::~CSNPBlobId ( void )

Definition at line 216 of file snp_client.cpp.

◆ CSNPBlobId() [5/8]

CSNPBlobId::CSNPBlobId ( const CTempString & str )

explicit

◆ CSNPBlobId() [6/8]

CSNPBlobId::CSNPBlobId	(	const CSNPFileInfo &	file,
		const objects::CSeq_id_Handle &	seq_id,
		size_t	filter_index
	)

◆ CSNPBlobId() [7/8]

CSNPBlobId::CSNPBlobId	(	const objects::CSNPDbSeqIterator &	seq,
		size_t	filter_index
	)

◆ CSNPBlobId() [8/8]

CSNPBlobId::CSNPBlobId	(	const CSNPFileInfo &	file,
		size_t	seq_index,
		size_t	filter_index
	)

◆ ~CSNPBlobId() [2/2]

CSNPBlobId::~CSNPBlobId ( void )

Member Function Documentation

◆ FromSatString() [1/2]

bool CSNPBlobId::FromSatString ( CTempString str )

Definition at line 418 of file snp_client.cpp.

References _ASSERT, NStr::fConvErr_NoThrow, isdigit(), IsSatId(), IsValidFilterIndex(), IsValidNAIndex(), IsValidNAVersion(), IsValidSeqIndex(), kSeqIndexCount, kSNPSatBase, kSNPSatPrimary, kSNPSubSatGraph, m_Accession, m_FilterIndex, m_IsPrimaryTrack, m_IsPrimaryTrackGraph, m_NAIndex, m_NAVersion, m_SeqId, m_SeqIndex, NPOS, CSeq_id_Handle::Reset(), and str().

Referenced by FromString().

◆ FromSatString() [2/2]

bool CSNPBlobId::FromSatString ( CTempString str )

◆ FromString() [1/2]

void CSNPBlobId::FromString ( CTempString str )

Definition at line 469 of file snp_client.cpp.

References _ASSERT, FromSatString(), CSeq_id_Handle::GetHandle(), IsSatId(), kFileEnd, m_Accession, m_FilterIndex, m_IsPrimaryTrack, m_IsPrimaryTrackGraph, m_NAIndex, m_NAVersion, m_SeqId, m_SeqIndex, NCBI_THROW_FMT, NPOS, CSeq_id_Handle::Reset(), s_ExtractFilterIndex(), SetSeqAndFilterIndex(), and str().

Referenced by CSNPBlobId().

◆ FromString() [2/2]

void CSNPBlobId::FromString ( CTempString str )

◆ GetAccession() [1/2]

string CSNPBlobId::GetAccession ( void ) const

Definition at line 376 of file snp_client.cpp.

References GetSatNA(), and m_Accession.

Referenced by CSNPDataLoader_Impl::GetFileInfo(), and CSNPClient::GetSeqInfo().

◆ GetAccession() [2/2]

string CSNPBlobId::GetAccession ( void ) const

◆ GetFilterIndex() [1/2]

size_t CSNPBlobId::GetFilterIndex ( void ) const

inline

Definition at line 117 of file snploader_impl.hpp.

References m_FilterIndex.

Referenced by GetSatKey(), IsValidSatKey(), CSNPSeqInfo::SetFromBlobId(), and ToString().

◆ GetFilterIndex() [2/2]

size_t CSNPBlobId::GetFilterIndex ( void ) const

inline

Definition at line 148 of file snp_client.hpp.

References m_FilterIndex.

◆ GetNAIndex() [1/2]

size_t CSNPBlobId::GetNAIndex ( void ) const

inline

Definition at line 105 of file snploader_impl.hpp.

References m_NAIndex.

Referenced by GetSatNA(), GetSubSat(), and IsValidSubSat().

◆ GetNAIndex() [2/2]

size_t CSNPBlobId::GetNAIndex ( void ) const

inline

Definition at line 136 of file snp_client.hpp.

References m_NAIndex.

◆ GetNAVersion() [1/2]

size_t CSNPBlobId::GetNAVersion ( void ) const

inline

Definition at line 109 of file snploader_impl.hpp.

References m_NAVersion.

Referenced by GetSat(), GetSatNA(), and IsValidSat().

◆ GetNAVersion() [2/2]

size_t CSNPBlobId::GetNAVersion ( void ) const

inline

Definition at line 140 of file snp_client.hpp.

References m_NAVersion.

◆ GetSat() [1/2]

Int4 CSNPBlobId::GetSat ( void ) const

Definition at line 283 of file snp_client.cpp.

References _ASSERT, GetNAVersion(), GetSatBase(), and IsValidNAVersion().

Referenced by ToString().

◆ GetSat() [2/2]

Int4 CSNPBlobId::GetSat ( void ) const

◆ GetSatBase() [1/2]

int CSNPBlobId::GetSatBase ( void ) const

Definition at line 258 of file snp_client.cpp.

References IsPrimaryTrack(), kSNPSatBase, and kSNPSatPrimary.

Referenced by GetSat().

◆ GetSatBase() [2/2]

int CSNPBlobId::GetSatBase ( void ) const

◆ GetSatKey() [1/2]

Int4 CSNPBlobId::GetSatKey ( void ) const

Definition at line 297 of file snp_client.cpp.

References _ASSERT, GetFilterIndex(), GetSeqIndex(), IsValidFilterIndex(), IsValidSeqIndex(), and kSeqIndexCount.

Referenced by ToString().

◆ GetSatKey() [2/2]

Int4 CSNPBlobId::GetSatKey ( void ) const

◆ GetSatNA() [1/2]

string CSNPBlobId::GetSatNA ( void ) const

Definition at line 335 of file snp_client.cpp.

References GetNAIndex(), GetNAVersion(), and str().

Referenced by GetAccession().

◆ GetSatNA() [2/2]

string CSNPBlobId::GetSatNA ( void ) const

◆ GetSeqId() [1/2]

CSeq_id_Handle CSNPBlobId::GetSeqId ( void ) const

Definition at line 369 of file snp_client.cpp.

References _ASSERT, IsSatId(), and m_SeqId.

Referenced by CSNPFileInfo::GetSeqInfo().

◆ GetSeqId() [2/2]

objects::CSeq_id_Handle CSNPBlobId::GetSeqId ( void ) const

◆ GetSeqIndex() [1/2]

size_t CSNPBlobId::GetSeqIndex ( void ) const

inline

Definition at line 113 of file snploader_impl.hpp.

References m_SeqIndex.

Referenced by GetSatKey(), CSNPFileInfo::GetSeqInfo(), and IsValidSatKey().

◆ GetSeqIndex() [2/2]

size_t CSNPBlobId::GetSeqIndex ( void ) const

inline

Definition at line 144 of file snp_client.hpp.

References m_SeqIndex.

◆ GetSubSat() [1/2]

Int4 CSNPBlobId::GetSubSat ( void ) const

Definition at line 290 of file snp_client.cpp.

References _ASSERT, GetNAIndex(), GetSubSatBase(), and IsValidNAIndex().

Referenced by ToString().

◆ GetSubSat() [2/2]

Int4 CSNPBlobId::GetSubSat ( void ) const

◆ GetSubSatBase() [1/2]

int CSNPBlobId::GetSubSatBase ( void ) const

Definition at line 264 of file snp_client.cpp.

References IsPrimaryTrackGraph(), and kSNPSubSatGraph.

Referenced by GetSubSat().

◆ GetSubSatBase() [2/2]

int CSNPBlobId::GetSubSatBase ( void ) const

◆ IsPrimaryTrack() [1/2]

bool CSNPBlobId::IsPrimaryTrack ( ) const

inline

Definition at line 131 of file snploader_impl.hpp.

References m_IsPrimaryTrack.

Referenced by GetSatBase(), IsPrimaryTrackFeat(), CSNPSeqInfo::SetFromBlobId(), SetPrimaryTrackFeat(), and SetPrimaryTrackGraph().

◆ IsPrimaryTrack() [2/2]

bool CSNPBlobId::IsPrimaryTrack ( ) const

inline

Definition at line 162 of file snp_client.hpp.

References m_IsPrimaryTrack.

◆ IsPrimaryTrackFeat() [1/2]

bool CSNPBlobId::IsPrimaryTrackFeat ( ) const

inline

Definition at line 139 of file snploader_impl.hpp.

References IsPrimaryTrack(), and IsPrimaryTrackGraph().

◆ IsPrimaryTrackFeat() [2/2]

bool CSNPBlobId::IsPrimaryTrackFeat ( ) const

inline

Definition at line 170 of file snp_client.hpp.

References IsPrimaryTrack(), and IsPrimaryTrackGraph().

◆ IsPrimaryTrackGraph() [1/2]

bool CSNPBlobId::IsPrimaryTrackGraph ( ) const

inline

Definition at line 135 of file snploader_impl.hpp.

References m_IsPrimaryTrackGraph.

Referenced by GetSubSatBase(), IsPrimaryTrackFeat(), and CSNPSeqInfo::SetFromBlobId().

◆ IsPrimaryTrackGraph() [2/2]

bool CSNPBlobId::IsPrimaryTrackGraph ( ) const

inline

Definition at line 166 of file snp_client.hpp.

References m_IsPrimaryTrackGraph.

◆ IsSatId() [1/2]

bool CSNPBlobId::IsSatId ( void ) const

Definition at line 277 of file snp_client.cpp.

References m_NAIndex.

Referenced by FromSatString(), FromString(), GetSeqId(), CSNPFileInfo::GetSeqInfo(), and ToString().

◆ IsSatId() [2/2]

bool CSNPBlobId::IsSatId ( void ) const

◆ IsValidFilterIndex() [1/2]

bool CSNPBlobId::IsValidFilterIndex ( size_t filter_index )

static

Definition at line 239 of file snp_client.cpp.

References kFilterIndexCount.

Referenced by FromSatString(), GetSatKey(), IsValidSatKey(), s_ExtractFilterIndex(), CSNPSeqInfo::SetFilterIndex(), SetSeqAndFilterIndex(), and sx_ExtractFilterIndex().

◆ IsValidFilterIndex() [2/2]

static bool CSNPBlobId::IsValidFilterIndex ( size_t filter_index )

static

◆ IsValidNA() [1/4]

static bool CSNPBlobId::IsValidNA ( CTempString acc )

inlinestatic

Definition at line 97 of file snploader_impl.hpp.

References ParseNA().

◆ IsValidNA() [2/4]

static bool CSNPBlobId::IsValidNA ( CTempString acc )

inlinestatic

Definition at line 127 of file snp_client.hpp.

References ParseNA().

◆ IsValidNA() [3/4]

static bool CSNPBlobId::IsValidNA ( pair< size_t, size_t > na )

inlinestatic

Definition at line 90 of file snploader_impl.hpp.

References IsValidNAIndex(), and IsValidNAVersion().

Referenced by CSNPClient::WhatNACanProcess(), and CSNPFileInfo::x_Initialize().

◆ IsValidNA() [4/4]

static bool CSNPBlobId::IsValidNA ( pair< size_t, size_t > na )

inlinestatic

Definition at line 119 of file snp_client.hpp.

References IsValidNAIndex(), and IsValidNAVersion().

◆ IsValidNAIndex() [1/2]

bool CSNPBlobId::IsValidNAIndex ( size_t index )

static

Definition at line 221 of file snp_client.cpp.

Referenced by FromSatString(), GetSubSat(), IsValidNA(), IsValidSubSat(), ParseNA(), and SetNAIndex().

◆ IsValidNAIndex() [2/2]

static bool CSNPBlobId::IsValidNAIndex ( size_t index )

static

◆ IsValidNAVersion() [1/2]

bool CSNPBlobId::IsValidNAVersion ( size_t version )

static

Definition at line 227 of file snp_client.cpp.

References kNAVersionMax, and kNAVersionMin.

Referenced by FromSatString(), GetSat(), IsValidNA(), IsValidSat(), ParseNA(), and SetNAVersion().

◆ IsValidNAVersion() [2/2]

static bool CSNPBlobId::IsValidNAVersion ( size_t version )

static

◆ IsValidSat() [1/2]

bool CSNPBlobId::IsValidSat ( void ) const

Definition at line 305 of file snp_client.cpp.

References GetNAVersion(), and IsValidNAVersion().

◆ IsValidSat() [2/2]

bool CSNPBlobId::IsValidSat ( void ) const

◆ IsValidSatKey() [1/2]

bool CSNPBlobId::IsValidSatKey ( void ) const

Definition at line 362 of file snp_client.cpp.

References GetFilterIndex(), GetSeqIndex(), IsValidFilterIndex(), and IsValidSeqIndex().

◆ IsValidSatKey() [2/2]

bool CSNPBlobId::IsValidSatKey ( void ) const

◆ IsValidSeqIndex() [1/2]

bool CSNPBlobId::IsValidSeqIndex ( size_t seq_index )

static

Definition at line 233 of file snp_client.cpp.

References kSeqIndexCount.

Referenced by FromSatString(), GetSatKey(), IsValidSatKey(), and SetSeqAndFilterIndex().

◆ IsValidSeqIndex() [2/2]

static bool CSNPBlobId::IsValidSeqIndex ( size_t seq_index )

static

◆ IsValidSubSat() [1/2]

bool CSNPBlobId::IsValidSubSat ( void ) const

Definition at line 252 of file snp_client.cpp.

References GetNAIndex(), and IsValidNAIndex().

◆ IsValidSubSat() [2/2]

bool CSNPBlobId::IsValidSubSat ( void ) const

◆ operator<()

bool CSNPBlobId::operator< ( const CBlobId & id ) const

virtual

Implements CBlobId.

Definition at line 556 of file snploader_impl.cpp.

References m_Accession, m_FilterIndex, m_IsPrimaryTrack, m_IsPrimaryTrackGraph, m_NAIndex, m_NAVersion, m_SeqId, and m_SeqIndex.

◆ operator==()

bool CSNPBlobId::operator== ( const CBlobId & id ) const

virtual

Reimplemented from CBlobId.

Definition at line 584 of file snploader_impl.cpp.

References m_Accession, m_FilterIndex, m_IsPrimaryTrack, m_IsPrimaryTrackGraph, m_NAIndex, m_NAVersion, m_SeqId, and m_SeqIndex.

◆ ParseNA() [1/2]

pair< size_t, size_t > CSNPBlobId::ParseNA ( CTempString acc )

static

Definition at line 311 of file snp_client.cpp.

References NStr::fConvErr_NoThrow, IsValidNAIndex(), IsValidNAVersion(), CTempString::size(), and CTempString::substr().

Referenced by IsValidNA(), and SetSatNA().

◆ ParseNA() [2/2]

static pair<size_t, size_t> CSNPBlobId::ParseNA ( CTempString acc )

static

◆ SetNAIndex() [1/2]

void CSNPBlobId::SetNAIndex ( size_t na_index )

Definition at line 245 of file snp_client.cpp.

References _ASSERT, IsValidNAIndex(), and m_NAIndex.

Referenced by SetSatNA().

◆ SetNAIndex() [2/2]

void CSNPBlobId::SetNAIndex ( size_t na_index )

◆ SetNAVersion() [1/2]

void CSNPBlobId::SetNAVersion ( size_t na_version )

Definition at line 270 of file snp_client.cpp.

References _ASSERT, IsValidNAVersion(), and m_NAVersion.

Referenced by SetSatNA().

◆ SetNAVersion() [2/2]

void CSNPBlobId::SetNAVersion ( size_t na_version )

◆ SetPrimaryTrackFeat() [1/2]

void CSNPBlobId::SetPrimaryTrackFeat ( void )

Definition at line 387 of file snp_client.cpp.

References _ASSERT, IsPrimaryTrack(), m_IsPrimaryTrack, and m_IsPrimaryTrackGraph.

Referenced by CSNPClient::GetAnnotInfo().

◆ SetPrimaryTrackFeat() [2/2]

void CSNPBlobId::SetPrimaryTrackFeat ( )

◆ SetPrimaryTrackGraph() [1/2]

void CSNPBlobId::SetPrimaryTrackGraph ( void )

Definition at line 395 of file snp_client.cpp.

References _ASSERT, IsPrimaryTrack(), m_IsPrimaryTrack, and m_IsPrimaryTrackGraph.

Referenced by CSNPClient::GetAnnotInfo().

◆ SetPrimaryTrackGraph() [2/2]

void CSNPBlobId::SetPrimaryTrackGraph ( )

◆ SetSatNA() [1/2]

void CSNPBlobId::SetSatNA ( CTempString acc )

Definition at line 344 of file snp_client.cpp.

References ParseNA(), SetNAIndex(), and SetNAVersion().

Referenced by CSNPBlobId().

◆ SetSatNA() [2/2]

void CSNPBlobId::SetSatNA ( CTempString acc )

◆ SetSeqAndFilterIndex() [1/2]

void CSNPBlobId::SetSeqAndFilterIndex	(	size_t	seq_index,
		size_t	filter_index
	)

Definition at line 352 of file snp_client.cpp.

References _ASSERT, IsValidFilterIndex(), IsValidSeqIndex(), m_FilterIndex, and m_SeqIndex.

Referenced by CSNPBlobId(), and FromString().

◆ SetSeqAndFilterIndex() [2/2]

void CSNPBlobId::SetSeqAndFilterIndex	(	size_t	seq_index,
		size_t	filter_index
	)

◆ ToString() [1/2]

string CSNPBlobId::ToString ( void ) const

virtual

Get string representation of blob id.

Should be unique for all blob ids from the same data loader.

Implements CBlobId.

Definition at line 403 of file snp_client.cpp.

References GetFilterIndex(), GetSat(), GetSatKey(), GetSubSat(), IsSatId(), kFileEnd, kFilterPrefixChar, m_Accession, m_SeqId, and out().

Referenced by CSNPClient::GetAnnotInfo().

◆ ToString() [2/2]

string CSNPBlobId::ToString ( void ) const

virtual

Get string representation of blob id.

Should be unique for all blob ids from the same data loader.

Implements CBlobId.

Member Data Documentation

◆ m_Accession

string CSNPBlobId::m_Accession

protected

Definition at line 157 of file snploader_impl.hpp.

Referenced by CSNPBlobId(), FromSatString(), FromString(), GetAccession(), operator<(), operator==(), and ToString().

◆ m_FilterIndex

Uint4 CSNPBlobId::m_FilterIndex

protected

Definition at line 154 of file snploader_impl.hpp.

Referenced by FromSatString(), FromString(), GetFilterIndex(), operator<(), operator==(), and SetSeqAndFilterIndex().

◆ m_IsPrimaryTrack

bool CSNPBlobId::m_IsPrimaryTrack

protected

Definition at line 151 of file snploader_impl.hpp.

Referenced by FromSatString(), FromString(), IsPrimaryTrack(), operator<(), operator==(), SetPrimaryTrackFeat(), and SetPrimaryTrackGraph().

◆ m_IsPrimaryTrackGraph

bool CSNPBlobId::m_IsPrimaryTrackGraph

protected

Definition at line 152 of file snploader_impl.hpp.

Referenced by FromSatString(), FromString(), IsPrimaryTrackGraph(), operator<(), operator==(), SetPrimaryTrackFeat(), and SetPrimaryTrackGraph().

◆ m_NAIndex

Uint4 CSNPBlobId::m_NAIndex

protected

Definition at line 149 of file snploader_impl.hpp.

Referenced by FromSatString(), FromString(), GetNAIndex(), IsSatId(), operator<(), operator==(), and SetNAIndex().

◆ m_NAVersion

Uint2 CSNPBlobId::m_NAVersion

protected

Definition at line 150 of file snploader_impl.hpp.

Referenced by FromSatString(), FromString(), GetNAVersion(), operator<(), operator==(), and SetNAVersion().

◆ m_SeqId [1/2]

CSeq_id_Handle CSNPBlobId::m_SeqId

protected

Definition at line 159 of file snploader_impl.hpp.

Referenced by FromSatString(), FromString(), GetSeqId(), operator<(), operator==(), and ToString().

◆ m_SeqId [2/2]

objects::CSeq_id_Handle CSNPBlobId::m_SeqId

protected

Definition at line 190 of file snp_client.hpp.

◆ m_SeqIndex

Uint4 CSNPBlobId::m_SeqIndex

protected

Definition at line 153 of file snploader_impl.hpp.

Referenced by FromSatString(), FromString(), GetSeqIndex(), operator<(), operator==(), and SetSeqAndFilterIndex().

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

include/sra/data_loaders/snp/impl/snploader_impl.hpp
src/app/pubseq_gateway/server/snp_client.hpp
src/app/pubseq_gateway/server/snp_client.cpp
src/sra/data_loaders/snp/snploader_impl.cpp

Public Member Functions

Static Public Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ CSNPBlobId() [1/8]

◆ CSNPBlobId() [2/8]

◆ CSNPBlobId() [3/8]

◆ CSNPBlobId() [4/8]

◆ ~CSNPBlobId() [1/2]

◆ CSNPBlobId() [5/8]

◆ CSNPBlobId() [6/8]

◆ CSNPBlobId() [7/8]

◆ CSNPBlobId() [8/8]

◆ ~CSNPBlobId() [2/2]

Member Function Documentation

◆ FromSatString() [1/2]

◆ FromSatString() [2/2]

◆ FromString() [1/2]

◆ FromString() [2/2]

◆ GetAccession() [1/2]

◆ GetAccession() [2/2]

◆ GetFilterIndex() [1/2]

◆ GetFilterIndex() [2/2]

◆ GetNAIndex() [1/2]

◆ GetNAIndex() [2/2]

◆ GetNAVersion() [1/2]

◆ GetNAVersion() [2/2]

◆ GetSat() [1/2]

◆ GetSat() [2/2]

◆ GetSatBase() [1/2]

◆ GetSatBase() [2/2]

◆ GetSatKey() [1/2]

◆ GetSatKey() [2/2]

◆ GetSatNA() [1/2]

◆ GetSatNA() [2/2]

◆ GetSeqId() [1/2]

◆ GetSeqId() [2/2]

◆ GetSeqIndex() [1/2]

◆ GetSeqIndex() [2/2]

◆ GetSubSat() [1/2]

◆ GetSubSat() [2/2]

◆ GetSubSatBase() [1/2]

◆ GetSubSatBase() [2/2]

◆ IsPrimaryTrack() [1/2]

◆ IsPrimaryTrack() [2/2]

◆ IsPrimaryTrackFeat() [1/2]

◆ IsPrimaryTrackFeat() [2/2]

◆ IsPrimaryTrackGraph() [1/2]

◆ IsPrimaryTrackGraph() [2/2]

◆ IsSatId() [1/2]

◆ IsSatId() [2/2]

◆ IsValidFilterIndex() [1/2]

◆ IsValidFilterIndex() [2/2]

◆ IsValidNA() [1/4]

◆ IsValidNA() [2/4]

◆ IsValidNA() [3/4]

◆ IsValidNA() [4/4]

◆ IsValidNAIndex() [1/2]

◆ IsValidNAIndex() [2/2]

◆ IsValidNAVersion() [1/2]

◆ IsValidNAVersion() [2/2]

◆ IsValidSat() [1/2]

◆ IsValidSat() [2/2]

◆ IsValidSatKey() [1/2]

◆ IsValidSatKey() [2/2]

◆ IsValidSeqIndex() [1/2]

◆ IsValidSeqIndex() [2/2]

◆ IsValidSubSat() [1/2]

◆ IsValidSubSat() [2/2]

◆ operator<()

◆ operator==()

◆ ParseNA() [1/2]

◆ ParseNA() [2/2]

◆ SetNAIndex() [1/2]

◆ SetNAIndex() [2/2]

◆ SetNAVersion() [1/2]

◆ SetNAVersion() [2/2]

◆ SetPrimaryTrackFeat() [1/2]