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NCBI C++ ToolKit: include/algo/blast/core/blast_diagnostics.h Source File

total_hits,

extended_hits,

struct BlastGappedStats BlastGappedStats

Structure containing hit counts from the gapped stage of a BLAST search.

BlastDiagnostics * Blast_DiagnosticsInitMT(MT_LOCK mt_lock)

Initialize the BlastDiagnostics structure for a multi-threaded search.

void Blast_UngappedStatsUpdate(BlastUngappedStats *ungapped_stats, Int4 total_hits, Int4 extended_hits, Int4 saved_hits)

Fill data in the ungapped hits diagnostics structure.

BlastDiagnostics * Blast_DiagnosticsInit(void)

Initialize the BlastDiagnostics structure and all its substructures.

struct BlastRawCutoffs BlastRawCutoffs

Structure holding raw cutoff and gap-x-drop values.

struct BlastDiagnostics BlastDiagnostics

Return statistics from the BLAST search.

BlastDiagnostics * Blast_DiagnosticsFree(BlastDiagnostics *diagnostics)

Free the BlastDiagnostics structure and all substructures.

struct BlastUngappedStats BlastUngappedStats

Structure containing hit counts from the ungapped stage of a BLAST search.

BlastDiagnostics * Blast_DiagnosticsCopy(const BlastDiagnostics *diagnostics)

Free the BlastDiagnostics structure and all substructures.

void Blast_DiagnosticsUpdate(BlastDiagnostics *diag_global, BlastDiagnostics *diag_local)

In a multi-threaded run, update global diagnostics data with the data coming from one of the prelimin...

int32_t Int4

4-byte (32-bit) signed integer

int64_t Int8

8-byte (64-bit) signed integer

Type and macro definitions from C toolkit that are not defined in C++ toolkit.

Return statistics from the BLAST search.

BlastUngappedStats * ungapped_stat

Ungapped extension counts.

BlastRawCutoffs * cutoffs

Various raw values for the cutoffs.

BlastGappedStats * gapped_stat

Gapped extension counts.

MT_LOCK mt_lock

Mutex for updating diagnostics data in a multi-threaded search.

Structure containing hit counts from the gapped stage of a BLAST search.

Int4 good_extensions

Number of HSPs below the e-value threshold after gapped extension.

Int4 num_seqs_passed

Number of sequences with top HSP passing the e-value threshold.

Int4 seqs_ungapped_passed

Number of sequences with top HSP after ungapped extension passing the e-value threshold.

Int4 extensions

Total number of gapped extensions performed.

Structure holding raw cutoff and gap-x-drop values.

Int4 ungapped_cutoff

Minimal raw score for starting gapped extension.

Int4 x_drop_gap_final

Raw value of the x-dropoff for gapped extensions with traceback.

Int4 x_drop_gap

Raw value of the x-dropoff for preliminary gapped extensions.

Int4 x_drop_ungapped

Raw value of the x-dropoff for ungapped extensions.

Int4 cutoff_score

Cutoff score corresponding to given evalue.

Structure containing hit counts from the ungapped stage of a BLAST search.

Int4 num_seqs_lookup_hits

Number of sequences which had at least one lookup table hit.

Int8 lookup_hits

Number of successful lookup table hits.

Int4 init_extends

Number of initial words found and extended.

Int4 good_init_extends

Number of successful initial extensions, i.e.

Int4 num_seqs_passed

Number of sequences with at least one HSP saved after ungapped stage.

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