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r501: added end_bonus to extz2

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Heng Li
2017-10-11 09:39:41 -04:00
parent 65abdb8f3c
commit 9364bc64d7
6 changed files with 19 additions and 15 deletions
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align.c
+1 -1
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@@ -200,7 +200,7 @@ static void mm_align_pair(void *km, const mm_mapopt_t *opt, int qlen, const uint
if (opt->flag & MM_F_SPLICE)
ksw_exts2_sse(km, qlen, qseq, tlen, tseq, 5, mat, opt->q, opt->e, opt->q2, opt->noncan, zdrop, flag, ez);
else if (opt->q == opt->q2 && opt->e == opt->e2)
ksw_extz2_sse(km, qlen, qseq, tlen, tseq, 5, mat, opt->q, opt->e, w, zdrop, flag, ez);
ksw_extz2_sse(km, qlen, qseq, tlen, tseq, 5, mat, opt->q, opt->e, w, zdrop, end_bonus, flag, ez);
else
ksw_extd2_sse(km, qlen, qseq, tlen, tseq, 5, mat, opt->q, opt->e, opt->q2, opt->e2, w, zdrop, end_bonus, flag, ez);
}