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r500: temporarily disabled region trunc 

because it is causing other problems.
This commit is contained in:
Heng Li 2017-10-11 00:16:04 -04:00
parent 7345621759
commit 65abdb8f3c
2 changed files with 3 additions and 3 deletions
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4
align.c
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@ -377,7 +377,7 @@ static void mm_align1(void *km, const mm_mapopt_t *opt, const mm_idx_t *mi, int
// compute rs0 and qs0
rs0 = (int32_t)a[r->as].x + 1 - (int32_t)(a[r->as].y>>32&0xff);
qs0 = (int32_t)a[r->as].y + 1 - (int32_t)(a[r->as].y>>32&0xff);
if (r->as > 0 && a[r->as - 1].x>>32 == a[r->as].x>>32) {
if (0 && r->as > 0 && a[r->as - 1].x>>32 == a[r->as].x>>32) {
rs1 = (int32_t)a[r->as - 1].x + 1 - (int32_t)(a[r->as - 1].y>>32&0xff);
} else rs1 = 0; // no adjacent previous chain on the same chr
if (qs > 0 && rs > 0) { // actually this is always true
@ -394,7 +394,7 @@ static void mm_align1(void *km, const mm_mapopt_t *opt, const mm_idx_t *mi, int
// compute re0 and qe0
re0 = (int32_t)a[r->as + r->cnt - 1].x + 1;
qe0 = (int32_t)a[r->as + r->cnt - 1].y + 1;
if (r->as + r->cnt < n_a && a[r->as + r->cnt].x>>32 == a[r->as + r->cnt - 1].x>>32) {
if (0 && r->as + r->cnt < n_a && a[r->as + r->cnt].x>>32 == a[r->as + r->cnt - 1].x>>32) {
re1 = (int32_t)a[r->as + r->cnt].x + 1;
} else re1 = mi->seq[rid].len; // no adjacent next chain on the same chr
if (qe < qlen && re < mi->seq[rid].len) {

2
main.c
View File

@ -6,7 +6,7 @@
#include "mmpriv.h"
#include "getopt.h"
#define MM_VERSION "2.2-r499-dirty"
#define MM_VERSION "2.2-r500-dirty"
#ifdef __linux__
#include <sys/resource.h>