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r286: ignore introns when computing max seg score

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Heng Li
2017-08-12 10:58:16 -04:00
parent 2d11aaa830
commit 0f4c823b0c
4 changed files with 21 additions and 13 deletions
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map.c
+1 -1
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@@ -348,7 +348,7 @@ static void *worker_pipeline(void *shared, int step, void *in)
for (i = 0; i < p->n_threads; ++i) mm_tbuf_destroy(s->buf[i]);
free(s->buf);
if (p->opt->flag & MM_F_CDNA)
intron_thres = (int)((float)(p->opt->q2 - p->opt->q) / p->opt->e + 0.999f);
intron_thres = mm_min_intron_len(p->opt->q, p->opt->e, p->opt->q2);
if ((p->opt->flag & MM_F_OUT_CS) && !(mm_dbg_flag & MM_DBG_NO_KALLOC)) km = km_init();
for (i = 0; i < s->n_seq; ++i) {
mm_bseq1_t *t = &s->seq[i];