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fixed wrong coordinate

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Heng Li
2020-03-27 13:45:09 -04:00
parent 1bb174a04e
commit 30a70bc307
2 changed files with 11 additions and 15 deletions
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24
anchor.cpp
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@@ -1,3 +1,4 @@
#include <stdio.h>
#include "htab.h"
#include "ksort.h"
#include "Hash_Table.h"
@@ -71,16 +72,9 @@ void ha_get_new_candidates(ha_abuf_t *ab, int64_t rid, UC_Read *ucr, overlap_reg
for (j = 0; j < s->n; ++j) {
const ha_idxpos_t *y = &s->a[j];
anchor1_t *an = &ab->a[k++];
uint8_t rev;
if (z->rev == y->rev) { // forward strand
rev = 0;
an->self_off = z->pos;
an->other_off = y->pos;
} else { // reverse strand
rev = 1;
an->self_off = ucr->length - 1 - (z->pos + 1 - z->span);
an->other_off = R_INF.read_length[y->rid] - 1 - (y->pos + 1 - y->span);
}
uint8_t rev = z->rev == y->rev? 0 : 1;
an->other_off = y->pos;
an->self_off = rev? ucr->length - 1 - (z->pos + 1 - z->span) : z->pos;
an->srt = (uint64_t)y->rid<<33 | (uint64_t)rev<<32 | an->other_off;
}
}
@@ -101,10 +95,12 @@ void ha_get_new_candidates(ha_abuf_t *ab, int64_t rid, UC_Read *ucr, overlap_reg
REALLOC(cl->list, cl->size);
}
for (k = 0; k < ab->n_a; ++k) {
cl->list[k].readID = ab->a[k].srt >> 33;
cl->list[k].strand = ab->a[k].srt >> 32 & 1;
cl->list[k].offset = ab->a[k].other_off;
cl->list[k].self_offset = ab->a[k].self_off;
k_mer_hit *p = &cl->list[k];
p->readID = ab->a[k].srt >> 33;
p->strand = ab->a[k].srt >> 32 & 1;
p->offset = ab->a[k].other_off;
p->self_offset = ab->a[k].self_off;
//fprintf(stderr, "A\t%ld\t%d\t%c\t%d\t%d\n", (long)rid, p->self_offset, "+-"[p->strand], p->readID, p->offset);
}
cl->length = ab->n_a;