Lines Matching refs:gap_open
59 Int4 gap_open, Int4 gap_extend, in s_SmithWatermanScoreOnly() argument
73 Int4 gap_open_extend = gap_open + gap_extend; in s_SmithWatermanScoreOnly()
166 Int4 gap_open, Int4 gap_extend, in s_NuclSmithWaterman() argument
179 Int4 gap_open_extend = gap_open + gap_extend; in s_NuclSmithWaterman()
280 Int4 gap_open, Int4 gap_extend, in s_GetTraceback() argument
339 curr_score -= gap_open; in s_GetTraceback()
348 curr_score -= gap_open; in s_GetTraceback()
441 Int4 gap_open = score_params->gap_open; in SmithWatermanScoreWithTraceback() local
443 Int4 gap_open_extend = gap_open + gap_extend; in SmithWatermanScoreWithTraceback()
553 gap_open, gap_extend, in SmithWatermanScoreWithTraceback()
596 gap_open, gap_extend, in SmithWatermanScoreWithTraceback()
613 gap_open, gap_extend, in SmithWatermanScoreWithTraceback()
700 score_params->gap_open, in BLAST_SmithWatermanGetGappedScore()
709 score_params->gap_open, in BLAST_SmithWatermanGetGappedScore()