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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/seq__annot__info_8hpp_source.html below:

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

1 #ifndef SEQ_ANNOT_INFO__HPP 2 #define SEQ_ANNOT_INFO__HPP 119  void

UpdateAnnotIndex(

void

)

const

;

123  const

TObject& x_GetObject(

void

)

const

;

125  void

x_SetObject(TObject& obj);

129  bool

x_HasSNP_annot_Info(

void

)

const

;

132

TAnnotIndex x_GetSNPFeatCount(

void

)

const

;

133

TAnnotIndex x_GetAnnotCount(

void

)

const

;

151

pair<TAnnotIndex, bool> Add(

const CSeq_feat

& new_obj);

152

pair<TAnnotIndex, bool> Add(

const CSeq_align

& new_obj);

153

pair<TAnnotIndex, bool> Add(

const CSeq_graph

& new_obj);

155  void

ReorderFtable(

const

vector<CSeq_feat_Handle>& feats);

172  bool

IsSortedTable(

void

)

const

;

194  bool

TableFeat_HasLabel(

TAnnotIndex

index)

const

;

195  string

TableFeat_GetLabel(

TAnnotIndex

index)

const

;

202  void

x_UpdateName(

void

);

207  void

x_InitAnnotList(

void

);

210  void

x_InitFeatList(

TFtable

& objs);

211  void

x_InitAlignList(

TAlign

& objs);

212  void

x_InitGraphList(

TGraph

& objs);

213  void

x_InitLocsList(

TLocs

& annot);

226  void

x_InitFeatTableKeys(

CTSE_Info

& tse);

236

vector<CHandleRangeMap>& hrmaps,

239  void

x_UnmapAnnotObjects(

CTSE_Info

& tse);

240  void

x_DropAnnotObjects(

CTSE_Info

& tse);

249  void

x_MapFeatById(

const CFeat_id

&

id

,

252  void

x_UnmapFeatById(

const CFeat_id

&

id

,

309  return

m_ObjectRange;

313  void

x_Settle(

void

);

314  bool

x_Valid(

void

);

const SAnnotObject_Key & GetAnnotObjectKey(size_t i) const

const TAnnotObjectInfos & GetAnnotObjectInfos(void) const

CRef< CSeq_annot_SNP_Info > m_SNP_Info

const CAnnotObject_Info & GetInfo(TAnnotIndex index) const

CSeq_annot_Info & operator=(const CSeq_annot_Info &)

const TAnnotObjectKeys & GetAnnotObjectKeys(void) const

CSeq_annot_Info(const CSeq_annot_Info &)

bool x_HasSNP_annot_Info(void) const

CSeq_annot::C_Data C_Data

SAnnotObjectsIndex::TObjectInfos TAnnotObjectInfos

CConstRef< TObject > GetSeq_annotSkeleton(void) const

C_Data::TSeq_table TSeq_table

const TObject & x_GetObject(void) const

map< CSeq_id_Handle, COpenRange< TSeqPos > > TTotalRangesMap

CRef< CSeqTableInfo > m_Table_Info

const CSeqTableInfo & GetTableInfo(void) const

int GetChunkId(void) const

SAnnotObjectsIndex::TObjectKeys TAnnotObjectKeys

SAnnotObjectsIndex m_ObjectIndex

const CSeq_annot_SNP_Info & x_GetSNP_annot_Info(void) const

CRange< TSeqPos > m_RequestRange

CRange< TSeqPos > m_ObjectRange

DECLARE_OPERATOR_BOOL(m_ObjectRow< m_NumRows)

CRef< CSeqTableInfo > m_Table_Info

const CRange< TSeqPos > & GetRange(void) const

size_t GetRow(void) const

CSeq_annot_SortedIter & operator++(void)

void x_DSMapObject(CConstRef< TObject > obj, CDataSource &ds)

void x_DSUnmapObject(CConstRef< TObject > obj, CDataSource &ds)

namespace ncbi::objects::

virtual void x_DoUpdate(TNeedUpdateFlags flags)

virtual void x_DSDetachContents(CDataSource &ds)

virtual void x_TSEAttachContents(CTSE_Info &tse)

virtual void x_DSAttachContents(CDataSource &ds)

virtual void x_TSEDetachContents(CTSE_Info &tse)

virtual string GetDescription(void) const

virtual void x_UpdateAnnotIndexContents(CTSE_Info &tse)

bool NotEmpty(void) const THROWS_NONE

Check if CRef is not empty – pointing to an object and has a non-null value.

int32_t Int4

4-byte (32-bit) signed integer

#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

list< CRef< CSeq_graph > > TGraph

list< CRef< CSeq_align > > TAlign

list< CRef< CSeq_loc > > TLocs

list< CRef< CSeq_feat > > TFtable

<!DOCTYPE HTML >< html > n< header > n< title > PubSeq Gateway Help Page</title > n< style > n table

const struct ncbi::grid::netcache::search::fields::SIZE size

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

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

TObjectInfos & GetInfos(void)

const SAnnotObject_Key & GetKey(size_t i) const

vector< SAnnotObject_Key > TObjectKeys

deque< CAnnotObject_Info > TObjectInfos

const TObjectKeys & GetKeys(void) const

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