bioseq_info.cpp File Reference

#include <ncbi_pch.hpp>
#include <objtools/pubseq_gateway/impl/cassandra/bioseq_info.hpp>

Include dependency graph for bioseq_info.cpp:

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Macros
#define	CANONICAL_SEQ_ID_CONSISTENCY   CassConsistency::CASS_CONSISTENCY_LOCAL_QUORUM
#define	BIOSEQ_INFO_CONSISTENCY   CassConsistency::CASS_CONSISTENCY_LOCAL_QUORUM

Functions
static BEGIN_IDBLOB_SCOPE void	s_GetCSIValues (shared_ptr< CCassQuery > &query, string &accession, int16_t &version, int16_t &seq_id_type)
CRequestStatus::ECode	FetchCanonicalSeqId (shared_ptr< CCassConnection > conn, const string &keyspace, const string &sec_seq_id, int16_t sec_seq_id_type, bool sec_seq_id_type_provided, string &accession, int16_t &version, int16_t &seq_id_type)
static void	s_GetBioseqValues (shared_ptr< CCassQuery > &query, SBioseqInfo &bioseq_info)
CRequestStatus::ECode	FetchBioseqInfo (shared_ptr< CCassConnection > conn, const string &keyspace, bool version_provided, bool seq_id_type_provided, SBioseqInfo &bioseq_info)

Variables
static const int	fnDateChanged = 0
static const int	fnHash = 1
static const int	fnIdSync = 2
static const int	fnLength = 3
static const int	fnMol = 4
static const int	fnSat = 5
static const int	fnSatKey = 6
static const int	fnSeqIds = 7
static const int	fnSeqState = 8
static const int	fnState = 9
static const int	fnTaxId = 10
static const int	fnSeqIdType = 11
static const int	fnVersion = 12

Macro Definition Documentation

BIOSEQ_INFO_CONSISTENCY

#define BIOSEQ_INFO_CONSISTENCY   CassConsistency::CASS_CONSISTENCY_LOCAL_QUORUM

Definition at line 38 of file bioseq_info.cpp.

CANONICAL_SEQ_ID_CONSISTENCY

#define CANONICAL_SEQ_ID_CONSISTENCY   CassConsistency::CASS_CONSISTENCY_LOCAL_QUORUM

Definition at line 37 of file bioseq_info.cpp.

Function Documentation

FetchBioseqInfo()

CRequestStatus::ECode FetchBioseqInfo	(	shared_ptr< CCassConnection >	conn,
		const string &	keyspace,
		bool	version_provided,
		bool	seq_id_type_provided,
		SBioseqInfo &	bioseq_info
	)

Definition at line 147 of file bioseq_info.cpp.

References ar_dataready, BIOSEQ_INFO_CONSISTENCY, conn, CRequestStatus::e200_Ok, CRequestStatus::e300_MultipleChoices, CRequestStatus::e404_NotFound, fnSeqIdType, fnVersion, SBioseqInfo::m_Accession, SBioseqInfo::m_SeqIdType, SBioseqInfo::m_Version, query, s_GetBioseqValues(), and dtl::version.

FetchCanonicalSeqId()

CRequestStatus::ECode FetchCanonicalSeqId	(	shared_ptr< CCassConnection >	conn,
		const string &	keyspace,
		const string &	sec_seq_id,
		int16_t	sec_seq_id_type,
		bool	sec_seq_id_type_provided,
		string &	accession,
		int16_t &	version,
		int16_t &	seq_id_type
	)

Definition at line 58 of file bioseq_info.cpp.

References ar_dataready, CANONICAL_SEQ_ID_CONSISTENCY, conn, CRequestStatus::e200_Ok, CRequestStatus::e300_MultipleChoices, CRequestStatus::e404_NotFound, query, s_GetCSIValues(), s_Select(), sql, and dtl::version.

s_GetBioseqValues()

static void s_GetBioseqValues ( shared_ptr< CCassQuery > &  query, SBioseqInfo &  bioseq_info  )

static

Definition at line 127 of file bioseq_info.cpp.

References set< Key, Compare >::end(), fnDateChanged, fnHash, fnIdSync, fnLength, fnMol, fnSat, fnSatKey, fnSeqIds, fnSeqState, fnState, fnTaxId, SBioseqInfo::m_DateChanged, SBioseqInfo::m_Hash, SBioseqInfo::m_IdSync, SBioseqInfo::m_Length, SBioseqInfo::m_Mol, SBioseqInfo::m_Sat, SBioseqInfo::m_SatKey, SBioseqInfo::m_SeqIds, SBioseqInfo::m_SeqState, SBioseqInfo::m_State, SBioseqInfo::m_TaxId, and query.

Referenced by FetchBioseqInfo().

s_GetCSIValues()

static BEGIN_IDBLOB_SCOPE void s_GetCSIValues ( shared_ptr< CCassQuery > &  query, string &  accession, int16_t &  version, int16_t &  seq_id_type  )

static

Definition at line 46 of file bioseq_info.cpp.

References query, and dtl::version.

Referenced by FetchCanonicalSeqId().

Variable Documentation

fnDateChanged

const int fnDateChanged = 0

static

Definition at line 109 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnHash

const int fnHash = 1

static

Definition at line 110 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnIdSync

const int fnIdSync = 2

static

Definition at line 111 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnLength

const int fnLength = 3

static

Definition at line 112 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnMol

const int fnMol = 4

static

Definition at line 113 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnSat

const int fnSat = 5

static

Definition at line 114 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnSatKey

const int fnSatKey = 6

static

Definition at line 115 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnSeqIds

const int fnSeqIds = 7

static

Definition at line 116 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnSeqIdType

const int fnSeqIdType = 11

static

Definition at line 120 of file bioseq_info.cpp.

Referenced by FetchBioseqInfo().

fnSeqState

const int fnSeqState = 8

static

Definition at line 117 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnState

const int fnState = 9

static

Definition at line 118 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnTaxId

const int fnTaxId = 10

static

Definition at line 119 of file bioseq_info.cpp.

Referenced by s_GetBioseqValues().

fnVersion

const int fnVersion = 12

static

Definition at line 121 of file bioseq_info.cpp.

Referenced by FetchBioseqInfo().