fork/minimap2
1
0
Fork 0
mirror of https://github.com/lh3/minimap2.git synced 2026-10-05 06:08:12 +08:00
Code Issues Packages Projects Releases Wiki Activity

r444: changed the way orientation is specified

Browse Source 
The old model doesn't work with RF or RR orientation. The new model only works
with paired-end reads. For >2 segments, only FF is supported.
This commit is contained in:
Heng Li
2017-09-27 12:33:10 -04:00
parent f611edf6f2
commit a349d85280
4 changed files with 39 additions and 13 deletions
Download Patch File Download Diff File Expand all files Collapse all files
pe.c
+29
View File
@@ -40,3 +40,32 @@ void mm_select_sub_multi(void *km, float pri_ratio, float pri1, float pri2, int
}
}
#include "ksort.h"
typedef struct {
int s;
uint64_t key;
mm_reg1_t *r;
} pair_arr_t;
#define sort_key_pair(a) ((a).key)
KRADIX_SORT_INIT(pair, pair_arr_t, sort_key_pair, 8)
/*
void mm_pair(void *km, int max_gap_ref, int *n_regs, mm_reg1_t **regs)
{
int i, j, s, n, last = -1;
pair_arr_t *a;
a = (pair_arr_t*)kmalloc(km, (n_regs[0] + n_regs[1]) * sizeof(pair_arr_t));
for (s = n = 0; s < 2; ++s)
for (i = 0; i < n_regs[s]; ++i) {
a[n].s = s;
a[n].r = &regs[s][i];
a[n++].key = (uint64_t)a[n].r->rid << 32 | a[n].r->rs;
}
radix_sort_pair(n, a);
for (i = 0; i < n; ++i) {
int pre_dir = seg_rev? !a[i].r->rev : a[i].r->rev;
}
kfree(km, a);
}
*/