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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/lds2__db_8hpp_source.html below:

NCBI C++ ToolKit: include/objtools/lds2/lds2_db.hpp Source File

96 return

!(*

this

);

140 delete

[] (

unsigned char

data

;

261 void

Open(EAccessMode

mode

= eWrite);

264 const string

GetDbFile

(

void

)

const

{

return

m_DbFile; }

269 void

SetSQLiteFlags(

int flags

);

274 void

SetAccessMode(EAccessMode

mode

);

279 void

GetFileNames(

TStringSet

& files)

const

;

287 void

DeleteFile(

const string

file_name

);

288 void

DeleteFile(

Int8

file_id);

342

fAnnot_All = fAnnot_Internal | fAnnot_External

352 Int8

GetAnnotCountForBlob(

Int8

blob_id);

377 void

BeginUpdate(

void

);

380 void

EndUpdate(

void

);

386 void

BeginRead(

void

);

389 void

EndRead(

void

);

392 void

Analyze(

void

);

403 void

x_ExecuteSqls(

const char

* sqls[],

size_t len

);

418 int

data_idx)

const

;

421

eSt_GetFileNames = 0,

470 void

x_ResetDbConnection(

void

);

EFormat

The formats are checked in the same order as declared here.

@ eUnknown

unknown format

EAccessMode GetAccessMode(void) const

Get current access mode.

CTls< SLDS2_DbConnection > TDbConnectionsTls

vector< CSeq_id_Handle > TSeqIds

List of seq-ids.

vector< SLDS2_Blob > TBlobSet

A set of ids (file_id, blob_id etc.).

CLDS2_Database & operator=(const CLDS2_Database &)

set< Int8 > TLdsIdSet

List of ids (blob_id, bioseq_id, lds_id etc.)

EAnnotChoice

Annotation type flags.

CLDS2_Database(const CLDS2_Database &)

@ eSt_GetLdsSeqIdForIntId

@ eSt_GetAnnotBlobsAllByTxtId

@ eSt_GetLdsSeqIdForTxtId

@ eSt_GetAnnotBlobsByIntId

@ eSt_GetSeq_idForLdsSeqId

@ eSt_GetAnnotInfosForBlob

@ eSt_GetBioseqIdForIntId

@ eSt_GetBioseqIdForTxtId

@ eSt_GetAnnotBlobsByTxtId

@ eSt_GetAnnotCountForBlob

@ eSt_GetAnnotBlobsAllByIntId

int GetSQLiteFlags(void) const

Get SQLite flags, see CSQLITE_Connection::TOperationFlags.

vector< AutoPtr< CSQLITE_Statement > > TStatements

set< CSeq_id_Handle > TSeqIdSet

EAccessMode

Database access mode flags.

@ eWrite

Read/write access.

@ eRead

Read-only access.

const string & GetDbFile(void) const

Get database file name.

vector< AutoPtr< SLDS2_Annot > > TLDS2Annots

CRef< TDbConnectionsTls > m_DbConn

void PrepareUpdate(void)

Prepare to update the DB.

void CancelUpdate(void)

Cancel the update, rollback the changes.

Connection to SQLite database.

SQL statement executing on SQLite database.

void Reset(void)

Reset the statement to release all locks and to be ready to execute again.

void(*)(CSeq_entry_Handle seh, IWorkbench *wb, const CSerialObject &obj) handler

std::ofstream out("events_result.xml")

main entry point for tests

static const char * str(char *buf, int n)

uint32_t Uint4

4-byte (32-bit) unsigned integer

int64_t Int8

8-byte (64-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.

IO_PREFIX::ostream CNcbiOstream

Portable alias for ostream.

The blob sat and sat key Both must be positive integers</td > n< td > Non empty string The interpretation of the blob id depends on a processor Cassandra n processor expects the following format

<!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

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

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

static SLJIT_INLINE sljit_ins st(sljit_gpr r, sljit_s32 d, sljit_gpr x, sljit_gpr b)

void Dump(CSplitCacheApp *app, const C &obj, ESerialDataFormat format, const string &key, const string &suffix=kEmptyStr)

unique_ptr< CSQLITE_Connection > Connection

Info about seq-id used in an annotation.

map< CSeq_id_Handle, SLDS2_AnnotIdInfo > TIdMap

EBlobType

Top-level object types.

@ eBioseq_set_element

Used for indexing individual seq-entries from a top-level bioseq-set.

SLDS2_Chunk(const SLDS2_Chunk &)

Int8 stream_pos

Chunk position in the processed (e.g. unzipped) stream.

SLDS2_Chunk & operator=(const SLDS2_Chunk &)

size_t data_size

Extra data size.

void * data

Extra data required to load the chunk.

SLDS2_Chunk(Int8 raw, Int8 str)

Int8 raw_pos

Chunk position in the raw file.

bool operator!=(const SLDS2_File &f) const

SLDS2_File(const string &file_name)

CFormatGuess::EFormat TFormat

bool operator==(const SLDS2_File &f) const

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