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r792: fixed -Wextra warnings and resolved #184

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Heng Li
2018-06-19 15:26:58 -04:00
parent 408e098859
commit 7e6e8ca73f
15 changed files with 67 additions and 58 deletions
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pe.c
+4 -4
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@@ -105,7 +105,7 @@ void mm_pair(void *km, int max_gap_ref, int pe_bonus, int sub_diff, int match_sc
max = -1;
max_idx[0] = max_idx[1] = -1;
last[0] = last[1] = -1;
kv_resize(uint64_t, km, sc, n);
kv_resize(uint64_t, km, sc, (size_t)n);
for (i = 0; i < n; ++i) {
if (a[i].key & 1) { // reverse first read or forward second read
mm_reg1_t *q, *r;
@@ -151,8 +151,8 @@ void mm_pair(void *km, int max_gap_ref, int pe_bonus, int sub_diff, int match_sc
}
}
mapq_pe = r[0]->mapq > r[1]->mapq? r[0]->mapq : r[1]->mapq;
for (i = 0; i < sc.n; ++i)
if ((sc.a[i]>>32) + sub_diff >= max>>32)
for (i = 0; i < (int)sc.n; ++i)
if ((sc.a[i]>>32) + sub_diff >= (uint64_t)max>>32)
++n_sub;
if (sc.n > 1) {
int mapq_pe_alt;
@@ -164,7 +164,7 @@ void mm_pair(void *km, int max_gap_ref, int pe_bonus, int sub_diff, int match_sc
if (sc.n == 1) {
if (r[0]->mapq < 2) r[0]->mapq = 2;
if (r[1]->mapq < 2) r[1]->mapq = 2;
} else if (max>>32 > sc.a[sc.n - 2]>>32) {
} else if ((uint64_t)max>>32 > sc.a[sc.n - 2]>>32) {
if (r[0]->mapq < 1) r[0]->mapq = 1;
if (r[1]->mapq < 1) r[1]->mapq = 1;
}