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fixed missing read names

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Overlapping not working yet (now confirmed)
This commit is contained in:
Heng Li
2020-03-27 12:51:08 -04:00
parent 78e8f2f28a
commit 1bb174a04e
5 changed files with 11 additions and 16 deletions
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htab.cpp
+4
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@@ -33,6 +33,9 @@ const unsigned char seq_nt4_table[256] = { // translate ACGT to 0123
4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4
};
void *ha_flt_tab;
ha_pt_t *ha_idx;
/***************************
* Yak specific parameters *
***************************/
@@ -571,6 +574,7 @@ static void *worker_count(void *data, int step, void *in) // callback for kt_pip
if (seq_nt4_table[(uint8_t)p->ks->seq.s[i]] >= 4)
++n_N;
ha_compress_base(Get_READ(*p->rs_out, p->n_seq), p->ks->seq.s, l, &p->rs_out->N_site[p->n_seq], n_N);
memcpy(&p->rs_out->name[p->rs_out->name_index[p->n_seq]], p->ks->name.s, p->ks->name.l);
}
}
if (s->n_seq == s->m_seq) {