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r792: fixed -Wextra warnings and resolved #184

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This commit is contained in:
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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format.c
+2 -2
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@@ -137,7 +137,7 @@ static void write_cs_core(kstring_t *s, const uint8_t *tseq, const uint8_t *qseq
{
int i, q_off, t_off;
mm_sprintf_lite(s, "\tcs:Z:");
for (i = q_off = t_off = 0; i < r->p->n_cigar; ++i) {
for (i = q_off = t_off = 0; i < (int)r->p->n_cigar; ++i) {
int j, op = r->p->cigar[i]&0xf, len = r->p->cigar[i]>>4;
assert(op >= 0 && op <= 3);
if (op == 0) { // match
@@ -185,7 +185,7 @@ static void write_MD_core(kstring_t *s, const uint8_t *tseq, const uint8_t *qseq
{
int i, q_off, t_off, l_MD = 0;
mm_sprintf_lite(s, "\tMD:Z:");
for (i = q_off = t_off = 0; i < r->p->n_cigar; ++i) {
for (i = q_off = t_off = 0; i < (int)r->p->n_cigar; ++i) {
int j, op = r->p->cigar[i]&0xf, len = r->p->cigar[i]>>4;
assert(op >= 0 && op <= 2); // introns (aka reference skips) are not supported
if (op == 0) { // match