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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/graphread_8hpp_source.html below:

NCBI C++ ToolKit: include/sra/readers/sra/graphread.hpp Source File

1 #ifndef SRA__READER__SRA__WGSREAD__HPP 2 #define SRA__READER__SRA__WGSREAD__HPP 69  bool

HasMidZoomGraphs(

void

);

77  return

!m_LookupIndex;

79  static bool

LookupIsInMemory(ELookupType lookup_type);

139  return

m_SeqMapBySeq_id;

204  return

!m_Info.m_RowSize;

206  operator const void

*(void)

const

{

207  return

!*

this

? 0:

this

;

210  const

SSeqInfo& GetInfo(

void

)

const

;

221  return

GetInfo().m_SeqId;

224  return

GetInfo().m_Seq_id_Handle;

228  return

GetInfo().m_SeqLength;

242

fGraphQAll = (fGraphQ0 | fGraphQ10 | fGraphQ50 |

243

fGraphQ90 | fGraphQ100),

247

fGraphMainAsTable = 1<<8,

248

fGraphMainAsGraph = 1<<9,

249

fGraphMainAsBest = (fGraphMainAsTable | fGraphMainAsGraph),

252

fGraphZoomQ0 = 1<<11,

253

fGraphZoomQ10 = 1<<12,

254

fGraphZoomQ50 = 1<<13,

255

fGraphZoomQ90 = 1<<14,

256

fGraphZoomQ100 = 1<<15,

257

fGraphZoomQAll = (fGraphZoomQ0 | fGraphZoomQ10 | fGraphZoomQ50 |

258

fGraphZoomQ90 | fGraphZoomQ100),

261

fDefaultContent = fGraphQAll

275  return

m_Db.GetNCObject();

280  const

SSeqInfo&

info

,

283

SGraphTableCursor& cursor,

288  const

SSeqInfo&

info

,

290

SGraphTableCursor& cursor)

const

;

293

SGraphTableCursor& cursor)

const

;

User-defined methods of the data storage class.

CTempString implements a light-weight string on top of a storage buffer whose lifetime management is ...

CVDBTableIndex m_LookupIndex

const TSeqInfoList & GetSeqInfoList(void) const

CVDBObjectCache< SGraphTableCursor > m_Graph

TSeqInfoMapBySeq_id m_SeqMapBySeq_id

const string & GetPath(void) const

void Put(CRef< SGraphTableCursor > &curs)

bool LookupIsInMemory() const

bool LookupIsInVDB() const

TSeqInfoMapByFirstRow m_SeqMapByFirstRow

const TSeqInfoMapBySeq_id & GetSeqInfoMapBySeq_id(void) const

const CVDBTable & GraphTable(void)

map< TVDBRowId, TSeqInfoList::iterator > TSeqInfoMapByFirstRow

map< CSeq_id_Handle, TSeqInfoList::iterator > TSeqInfoMapBySeq_id

list< SSeqInfo > TSeqInfoList

CVDBGraphDb(CVDBMgr &mgr, CTempString path, ELookupType lookup_type=eLookupDefault)

CVDBGraphDb(CVDBGraphDb_Impl *impl)

const string & GetSeqId(void) const

CVDBGraphDb_Impl::SSeqInfo m_Info

CVDBGraphDb_Impl & GetDb(void) const

const SSeqInfo * operator->(void) const

TSeqPos GetSeqLength(void) const

const SSeqInfo & operator*(void) const

CVDBGraphDb_Impl::TSeqInfoList::const_iterator TSeqInfoIter

bool operator!(void) const

CVDBGraphSeqIterator(void)

CVDBGraphDb_Impl::SGraphTableCursor SGraphTableCursor

CVDBGraphDb_Impl::SSeqInfo SSeqInfo

const CSeq_id_Handle & GetSeq_id_Handle(void) const

Include a standard set of the NCBI C++ Toolkit most basic headers.

static const char * column

unsigned int TSeqPos

Type for sequence locations and lengths.

#define NCBI_SRAREAD_EXPORT

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

Multi-threading – mutexes; rw-locks; semaphore.

#define row(bind, expected)

DECLARE_VDB_COLUMN_AS(int64_t, START)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_ZOOM_Q0)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_ZOOM_Q100)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_ZOOM_Q10)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_Q90)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_Q100)

DECLARE_VDB_COLUMN_AS(uint32_t, SCALE)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_Q50)

DECLARE_VDB_COLUMN_AS(TGraphV, GRAPH)

DECLARE_VDB_COLUMN_AS(uint32_t, LEN)

DECLARE_VDB_COLUMN_AS_STRING(SID)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_Q10)

DECLARE_VDB_COLUMN_AS(int64_t, NUM_SWITCHES)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_Q0)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_ZOOM_Q50)

DECLARE_VDB_COLUMN_AS(TGraphQ, GR_ZOOM_Q90)

CSeq_id_Handle m_Seq_id_Handle


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