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r360: allow to set integer max occ

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Heng Li
2017-09-13 11:37:00 -04:00
parent 1b44275802
commit 3c91d652dd
5 changed files with 16 additions and 10 deletions
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minimap.h
+1 -3
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@@ -105,8 +105,7 @@ typedef struct {
int min_dp_max;
int min_ksw_len;
int max_occ;
int mid_occ;
int32_t max_occ, mid_occ;
} mm_mapopt_t;
extern int mm_verbose, mm_dbg_flag;
@@ -127,7 +126,6 @@ void mm_sketch(void *km, const char *str, int len, int w, int k, uint32_t rid, i
mm_idx_t *mm_idx_init(int w, int k, int b, int is_hpc);
void mm_idx_destroy(mm_idx_t *mi);
mm_idx_t *mm_idx_gen(struct mm_bseq_file_s *fp, int w, int k, int b, int is_hpc, int mini_batch_size, int n_threads, uint64_t batch_size, int keep_name);
uint32_t mm_idx_cal_max_occ(const mm_idx_t *mi, float f);
void mm_idx_stat(const mm_idx_t *idx);
const uint64_t *mm_idx_get(const mm_idx_t *mi, uint64_t minier, int *n);
int mm_idx_getseq(const mm_idx_t *mi, uint32_t rid, uint32_t st, uint32_t en, uint8_t *seq);