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Heng Li
2017-09-20 11:47:46 -04:00
parent 645db3350e
commit 03d6894517
3 changed files with 20 additions and 2 deletions
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map.c
+1 -1
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@@ -268,7 +268,7 @@ mm_reg1_t *mm_map_seg(const mm_idx_t *mi, int n_segs, int *qlens, const char *se
if (!(opt->flag & MM_F_AVA)) { // don't choose primary mapping(s) for read overlap
mm_set_parent(b->km, opt->mask_level, *n_regs, regs, opt->a * 2 + opt->b);
mm_select_sub(b->km, opt->mask_level, opt->pri_ratio, mi->k*2, opt->best_n, n_regs, regs);
if (!(opt->flag & MM_F_SPLICE))
if (!(opt->flag & MM_F_SPLICE) && !(opt->flag & MM_F_SR))
mm_join_long(b->km, opt, qlen_sum, n_regs, regs, a); // TODO: this can be applied to all-vs-all in principle
}