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lack final alignment

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chhylp123
2022-10-01 19:53:02 -04:00
parent 20a7dac82a
commit bbd3394b4a
10 changed files with 1397 additions and 165 deletions
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Correct.h
+2 -2
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@@ -20,7 +20,7 @@
#define ERROR_RATE 1.25
#define UL_TOPN 50
#define SGAP 16
#define MAX_LGAP(ql) ((((ql)*0.33)>2000)?((ql)*0.33):2000)
#define MAX_LGAP(ql) ((((ql)*0.2)<256)?((ql)*0.2):256)
#define WINDOW_MAX_SIZE (WINDOW + (int)(1.0 / HA_MIN_OV_DIFF) + 3) // TODO: why 1/max_ov_diff?
@@ -1136,7 +1136,7 @@ void correct_ul_overlap(overlap_region_alloc* overlap_list, const ul_idx_t *uref
double max_ov_diff_ec, long long winLen, void *km);
void ul_lalign(overlap_region_alloc* ol, Candidates_list *cl, const ul_idx_t *uref, char *qstr,
uint64_t ql, UC_Read* qu, UC_Read* tu, Correct_dumy* dumy, bit_extz_t *exz,
haplotype_evdience_alloc* hap, kvec_t_u64_warp* v_idx,
bit_extz_t *exz1, haplotype_evdience_alloc* hap, kvec_t_u64_warp* v_idx,
double e_rate, int64_t wl, kv_ul_ov_t *aln, int64_t sid, uint64_t hpc_k, void *km);
void ul_lalign_old_ed(overlap_region_alloc* ol, Candidates_list *cl, const ul_idx_t *uref, char *qstr,