zzh
/
fast-bwa
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Fixed clang compiling warnings

This commit is contained in:
Heng Li 2014-03-16 15:18:22 -04:00
parent 1c19bc630f
commit 8ede4ffbfa
4 changed files with 9 additions and 9 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
Makefile
View File

@ -1,6 +1,6 @@
CC= gcc
#CC= clang --analyze
CFLAGS= -g -Wall -O2
CFLAGS= -g -Wall -O2 -Wno-unused-function
WRAP_MALLOC=-DUSE_MALLOC_WRAPPERS
AR= ar
DFLAGS= -DHAVE_PTHREAD $(WRAP_MALLOC)

8
bwt.h
View File

@ -96,14 +96,14 @@ extern "C" {
void bwt_bwtupdate_core(bwt_t *bwt);
inline bwtint_t bwt_occ(const bwt_t *bwt, bwtint_t k, ubyte_t c);
inline void bwt_occ4(const bwt_t *bwt, bwtint_t k, bwtint_t cnt[4]);
bwtint_t bwt_occ(const bwt_t *bwt, bwtint_t k, ubyte_t c);
void bwt_occ4(const bwt_t *bwt, bwtint_t k, bwtint_t cnt[4]);
bwtint_t bwt_sa(const bwt_t *bwt, bwtint_t k);
// more efficient version of bwt_occ/bwt_occ4 for retrieving two close Occ values
void bwt_gen_cnt_table(bwt_t *bwt);
inline void bwt_2occ(const bwt_t *bwt, bwtint_t k, bwtint_t l, ubyte_t c, bwtint_t *ok, bwtint_t *ol);
inline void bwt_2occ4(const bwt_t *bwt, bwtint_t k, bwtint_t l, bwtint_t cntk[4], bwtint_t cntl[4]);
void bwt_2occ(const bwt_t *bwt, bwtint_t k, bwtint_t l, ubyte_t c, bwtint_t *ok, bwtint_t *ol);
void bwt_2occ4(const bwt_t *bwt, bwtint_t k, bwtint_t l, bwtint_t cntk[4], bwtint_t cntl[4]);
int bwt_match_exact(const bwt_t *bwt, int len, const ubyte_t *str, bwtint_t *sa_begin, bwtint_t *sa_end);
int bwt_match_exact_alt(const bwt_t *bwt, int len, const ubyte_t *str, bwtint_t *k0, bwtint_t *l0);

2
bwt_lite.c
View File

@ -56,7 +56,7 @@ bwtl_t *bwtl_seq2bwtl(int len, const uint8_t *seq)
}
return b;
}
inline uint32_t bwtl_occ(const bwtl_t *bwt, uint32_t k, uint8_t c)
uint32_t bwtl_occ(const bwtl_t *bwt, uint32_t k, uint8_t c)
{
uint32_t n, b;
if (k == bwt->seq_len) return bwt->L2[c+1] - bwt->L2[c];

6
bwt_lite.h
View File

@ -17,9 +17,9 @@ extern "C" {
#endif
bwtl_t *bwtl_seq2bwtl(int len, const uint8_t *seq);
inline uint32_t bwtl_occ(const bwtl_t *bwt, uint32_t k, uint8_t c);
inline void bwtl_occ4(const bwtl_t *bwt, uint32_t k, uint32_t cnt[4]);
inline void bwtl_2occ4(const bwtl_t *bwt, uint32_t k, uint32_t l, uint32_t cntk[4], uint32_t cntl[4]);
uint32_t bwtl_occ(const bwtl_t *bwt, uint32_t k, uint8_t c);
void bwtl_occ4(const bwtl_t *bwt, uint32_t k, uint32_t cnt[4]);
void bwtl_2occ4(const bwtl_t *bwt, uint32_t k, uint32_t l, uint32_t cntk[4], uint32_t cntl[4]);
void bwtl_destroy(bwtl_t *bwt);
#ifdef __cplusplus