fork/minimap2
1
0
Fork 0
mirror of https://github.com/lh3/minimap2.git synced 2026-09-29 01:18:12 +08:00
Code Issues Packages Projects Releases Wiki Activity

wrong HPC

Browse Source
This commit is contained in:
Heng Li
2017-05-04 17:45:19 +08:00
parent 06adabd0dc
commit 10db6b0434
2 changed files with 6 additions and 4 deletions
Download Patch File Download Diff File Expand all files Collapse all files
map.c
+5 -3
View File
@@ -10,7 +10,7 @@
void mm_mapopt_init(mm_mapopt_t *opt)
{
memset(opt, 0, sizeof(mm_mapopt_t));
opt->n_frag_mini = 100;
opt->n_frag_mini = 1000;
opt->max_occ_frac = 1e-5f;
opt->mid_occ_frac = 2e-4f;
opt->sdust_thres = 0;
@@ -261,7 +261,7 @@ void mm_map_frag(const mm_mapopt_t *opt, const mm_idx_t *mi, mm_tbuf_t *b, uint3
}
}
radix_sort_128x(a, a + n_a);
// for (i = 0; i < n_a; ++i) printf("%c\t%d\t%d\n", "+-"[a[i].x>>63], (uint32_t)a[i].x>>1, (uint32_t)a[i].y);
//for (i = 0; i < n_a; ++i) printf("%c\t%s\t%d\t%d\n", "+-"[a[i].x>>63], mi->seq[a[i].x<<1>>33].name, (uint32_t)a[i].x>>1, (uint32_t)a[i].y);
t = (int*)kmalloc(b->km_fixed, (n_a + opt->min_cnt - 1) / opt->min_cnt * sizeof(int));
n_t = mm_liss(opt->radius, opt->min_cnt, b->km_fixed, n_a, a, t);
@@ -278,7 +278,9 @@ void mm_map_frag(const mm_mapopt_t *opt, const mm_idx_t *mi, mm_tbuf_t *b, uint3
else if (t[i] > max2) max2 = t[i];
off += t[i];
}
printf("%s\t%d\t%d\t", qname, max, max2);
if (a_st) printf("%s:%d-%d", qname, (uint32_t)a_st->y, (uint32_t)(a_en-1)->y);
else printf("%s:*", qname);
printf("\t%d\t%d\t", max, max2);
if (max_i >= 0) printf("%s:%d-%d", mi->seq[a_st->x<<1>>33].name, (uint32_t)a_st->x>>1, (uint32_t)(a_en-1)->x>>1);
else printf("*");
printf("\t%d\t%d\t%d\t%d\t%d\n", n_tot, n_low, s_low, n, n_t);