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NCBI C++ ToolKit: include/objmgr/impl/annot_object.hpp Source File

(

)

TFtable::iterator iter);

TAlign::iterator iter);

TGraph::iterator iter);

TLocs::iterator iter);

IsEmpty(

)

;

IsRemoved(

)

;

IsRegular(

)

;

IsChunkStub(

)

;

& GetTSE_Info(

)

;

GetAnnotIndex(

)

;

* GetObjectPointer(

)

;

IsFeat(

)

;

& GetFeat(

)

;

* GetFeatFast(

)

;

IsAlign(

)

;

* GetAlignFast(

)

;

IsGraph(

)

;

* GetGraphFast(

)

;

IsLocs(

)

;

& GetLocs(

)

;

GetMaps(vector<CHandleRangeMap>& hrmaps,

x_SetObject(

& new_obj);

x_SetObject(

& new_obj);

x_SetObject(

& new_obj);

TFtable::iterator& x_GetFeatIter(

)

;

TAlign::iterator& x_GetAlignIter(

)

;

TGraph::iterator& x_GetGraphIter(

)

;

TLocs::iterator& x_GetLocsIter(

)

;

x_MoveToBack(

& cont);

x_ProcessAlign(vector<CHandleRangeMap>& hrmaps,

x_ProcessFeat(vector<CHandleRangeMap>& hrmaps,

x_ProcessGraph(vector<CHandleRangeMap>& hrmaps,

m_Key.IsSingle();

m_Key.begin();

m_Key.SetMultiple(begin, end);

x_Locs_AddFeatSubtype(

ftype,

: m_Seq_annot_Info(0),

CSeq_annot::C_Data::TFtable::iterator&

CSeq_annot::C_Data::TAlign::iterator&

CSeq_annot::C_Data::TGraph::iterator&

CSeq_annot::C_Data::TLocs::iterator&

User-defined methods of the data storage class.

@ eEmpty

no filtering at all.

CSeqFeatData::ESubtype TFeatSubtype

const TFtable::iterator & x_GetFeatIter(void) const

TAnnotType Which(void) const

const CTSE_Chunk_Info & GetChunk_Info(void) const

const CSeq_loc & GetLocs(void) const

CUnionBuffer< TFtable::iterator > m_Feat

const CSeq_align * GetAlignFast(void) const

const CSeq_annot_Info & GetSeq_annot_Info(void) const

CTSE_Chunk_Info * m_Chunk

const TLocs::iterator & x_GetLocsIter(void) const

const TGraph::iterator & x_GetGraphIter(void) const

const CSeq_graph & GetGraph(void) const

bool IsRegular(void) const

union CAnnotObject_Info::@740 m_Iter

vector< TIndexRange > TTypeIndexSet

CUnionBuffer< TLocs::iterator > m_Locs

CUnionBuffer< TGraph::iterator > m_Graph

const CSeq_feat * GetFeatFast(void) const

TFeatSubtype GetFeatSubtype(void) const

size_t GetKeysBegin(void) const

TIndex GetAnnotIndex(void) const

CSeq_annot_Info * m_Seq_annot_Info

const CSeq_feat & GetFeat(void) const

CSeqFeatData::E_Choice TFeatType

void SetKeys(size_t begin, size_t end)

const SAnnotTypeSelector & GetTypeSelector(void) const

TFeatType GetFeatType(void) const

void SetKey(const SAnnotObject_Key &key)

SAnnotTypeSelector m_Type

const TAlign::iterator & x_GetAlignIter(void) const

bool IsChunkStub(void) const

pair< size_t, size_t > TIndexRange

TAnnotType GetAnnotType(void) const

const SAnnotObject_Key & GetKey(void) const

C_Data::E_Choice TAnnotType

bool HasSingleKey(void) const

const CSeq_align & GetAlign(void) const

CUnionBuffer< TAlign::iterator > m_Align

bool IsRemoved(void) const

const CSeq_graph * GetGraphFast(void) const

size_t GetKeysEnd(void) const

CSeq_annot::C_Data C_Data

namespace ncbi::objects::

unsigned int TSeqPos

Type for sequence locations and lengths.

objects::CSeqFeatData::ESubtype GetFeatSubtype(const string &feat_type)

void Reset(void)

Reset the handle (remove seq-id reference)

int32_t Int4

4-byte (32-bit) signed integer

TThisType & SetToOpen(position_type toOpen)

position_type GetToOpen(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

#define NCBI_XOBJMGR_EXPORT

void SetFrom(TFrom value)

Assign a value to From data member.

TFrom GetFrom(void) const

Get the From member data.

E_Choice

Choice variants.

list< CRef< CSeq_graph > > TGraph

list< CRef< CSeq_align > > TAlign

E_Choice

Choice variants.

list< CRef< CSeq_loc > > TLocs

list< CRef< CSeq_feat > > TFtable

@ e_Locs

used for communication between tools

const struct ncbi::grid::netcache::search::fields::KEY key

Portable reference counted smart and weak pointers using CWeakRef, CRef, CObject and CObjectEx.

void SetMultiple(size_t from, size_t to)

CRange< TSeqPos > m_Range

bool IsSingle(void) const

TFeatSubtype GetFeatSubtype(void) const

TAnnotType GetAnnotType(void) const

TFeatType GetFeatType(void) const

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