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working with toy examples

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Heng Li
2018-07-15 10:55:00 -04:00
parent 951c0d1d35
commit 4b707aac92
5 changed files with 49 additions and 34 deletions
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hit.c
+10 -4
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@@ -164,9 +164,9 @@ set_parent_test:
kfree(km, w);
}
void mm_hit_sort_by_dp(void *km, int *n_regs, mm_reg1_t *r)
void mm_hit_sort(void *km, int *n_regs, mm_reg1_t *r)
{
int32_t i, n_aux, n = *n_regs;
int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0;
mm128_t *aux;
mm_reg1_t *t;
@@ -175,14 +175,20 @@ void mm_hit_sort_by_dp(void *km, int *n_regs, mm_reg1_t *r)
t = (mm_reg1_t*)kmalloc(km, n * sizeof(mm_reg1_t));
for (i = n_aux = 0; i < n; ++i) {
if (r[i].inv || r[i].cnt > 0) { // squeeze out elements with cnt==0 (soft deleted)
assert(r[i].p);
aux[n_aux].x = (uint64_t)r[i].p->dp_max << 32 | r[i].hash;
if (r[i].p) {
aux[n_aux].x = (uint64_t)r[i].p->dp_max << 32 | r[i].hash;
has_cigar = 1;
} else {
aux[n_aux].x = (uint64_t)r[i].score << 32 | r[i].hash;
no_cigar = 1;
}
aux[n_aux++].y = i;
} else if (r[i].p) {
free(r[i].p);
r[i].p = 0;
}
}
assert(has_cigar + no_cigar == 1);
radix_sort_128x(aux, aux + n_aux);
for (i = n_aux - 1; i >= 0; --i)
t[n_aux - 1 - i] = r[aux[i].y];