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NCBI C++ ToolKit: src/algo/blast/unit_tests/api/hspstream_test_util.cpp Source File

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(index = 0; index < num_queries; ++index) {

hsp_list->

= num_queries;

index,

nthreads,

total,

nqueries)

: m_ipHspStream(hsp_stream), m_iIndex(index), m_iNumThreads(nthreads),

m_iTotal(total), m_iNumQueries(nqueries)

max_score = 100;

Structures and API used for saving BLAST hits.

BlastHSP * Blast_HSPNew(void)

Allocate and zeros out memory for an HSP structure.

BlastHSPList * Blast_HSPListNew(Int4 hsp_max)

Creates HSP list structure with a default size HSP array.

int BlastHSPStreamWrite(BlastHSPStream *hsp_stream, BlastHSPList **hsp_list)

Invokes the user-specified write function for this BlastHSPStream implementation.

const int kBlastHSPStream_Success

Standard success return value for BlastHSPStream methods.

virtual void * Main(void)

Derived (user-created) class must provide a real thread function.

BlastHSPStream * m_ipHspStream

virtual void OnExit(void)

Override this to execute finalization code.

CHspStreamWriteThread(BlastHSPStream *hsp_stream, int index, int nthreads, int total, int nqueries)

BlastHSPList * setupHSPList(int score, int num_queries, int oid)

Auxiliary utilities needed for testing HSP stream interface.

#define ASSERT

macro for assert.

The structure to hold all HSPs for a given sequence after the gapped alignment.

Int4 oid

The ordinal id of the subject sequence this HSP list is for.

Int4 hspcnt

Number of HSPs saved.

BlastHSP ** hsp_array

Array of pointers to individual HSPs.

Default implementation of BlastHSPStream.

Int4 context

Context number of query.

Int4 score

This HSP's raw score.

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