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r170: added a debugging flag

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something wrong with chaining
This commit is contained in:
Heng Li
2017-07-11 14:47:35 -04:00
parent 801bc84b01
commit 826c8ba892
3 changed files with 10 additions and 3 deletions
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map.c
+5 -1
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@@ -236,6 +236,10 @@ mm_reg1_t *mm_map_frag(const mm_mapopt_t *opt, const mm_idx_t *mi, mm_tbuf_t *b,
if (m[i].is_alloc) kfree(b->km, m[i].x.r);
kfree(b->km, m);
if (mm_dbg_flag & MM_DBG_PRINT_SEED)
for (i = 0; i < n_a; ++i)
fprintf(stderr, "SD\t%d\t%c\t%s\t%d\t%d\n", (int32_t)a[i].y, "+-"[a[i].x>>63], mi->seq[a[i].x<<1>>33].name, (int32_t)a[i].x, (int32_t)(a[i].y>>32&0xff));
n_u = mm_chain_dp(opt->max_gap, opt->bw, opt->max_chain_skip, opt->min_cnt, opt->min_chain_score, n_a, a, &u, b->km);
regs = mm_gen_regs(b->km, qlen, n_u, u, a);
*n_regs = n_u;
@@ -296,7 +300,7 @@ static void worker_for(void *_data, long i, int tid) // kt_for() callback
{
step_t *step = (step_t*)_data;
if (mm_dbg_flag & MM_DBG_PRINT_QNAME)
fprintf(stderr, "Processing query %s on thread %d\n", step->seq[i].name, tid);
fprintf(stderr, "QR\t%s\t%d\n", step->seq[i].name, tid);
step->reg[i] = mm_map(step->p->mi, step->seq[i].l_seq, step->seq[i].seq, &step->n_reg[i], step->buf[tid], step->p->opt, step->seq[i].name);
}