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r501: added end_bonus to extz2

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Heng Li
2017-10-11 09:39:41 -04:00
parent 65abdb8f3c
commit 9364bc64d7
6 changed files with 19 additions and 15 deletions
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chain.c
+2 -2
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@@ -21,8 +21,8 @@ static inline int ilog2_32(uint32_t v)
mm128_t *mm_chain_dp(int max_dist_x, int max_dist_y, int bw, int max_skip, int min_cnt, int min_sc, int is_cdna, int n_segs, int64_t n, mm128_t *a, int *n_u_, uint64_t **_u, void *km)
{ // TODO: make sure this works when n has more than 32 bits
int32_t st = 0, k, *f, *p, *t, *v, n_u, n_v;
int64_t i, j;
int32_t k, *f, *p, *t, *v, n_u, n_v;
int64_t i, j, st = 0;
uint64_t *u, *u2, sum_qspan = 0;
float avg_qspan;
mm128_t *b, *w;