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unsucessful hpc mark

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chhylp123
2026-05-15 19:02:16 -04:00
parent 7884b5ad88
commit bca2394b69
12 changed files with 2679 additions and 216 deletions
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Correct.h
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@@ -1458,7 +1458,7 @@ void gen_hc_r_alin_nec_adv(gen_hc_aln_t *ez);
uint64_t gen_hc_r_alin_re(overlap_region* z, Candidates_list *cl, char* qstr, uint64_t ql, char* tstr, uint64_t tl, bit_extz_t *exz, overlap_region *aux_o, double e_rate, int64_t wl, int64_t rid, int64_t khit, int64_t move_gap, asg16_v* buf);
uint64_t gen_hc_r_alin_self(overlap_region* z, Candidates_list *cl, char* qstr, uint64_t ql, char* tstr, uint64_t tl, bit_extz_t *exz, overlap_region *aux_o, double e_rate, int64_t wl, int64_t rid, int64_t khit, int64_t move_gap, asg16_v* buf, asg16_v* scc);
void rphase_hc(overlap_region_alloc* ol, All_reads *rref, haplotype_evdience_alloc* hp, UC_Read* qu, asg16_v *qc0, UC_Read* tu, kv_ul_ov_t *c_idx, asg64_v* idx, asg64_v* buf, int64_t bd, int64_t wl, int64_t ql, uint8_t occ_thres/**, uint8_t is_dbg**/, uint64_t rid, uint64_t hpc_len, uint64_t std_bs, Chain_Data *dp, asg8_v *q8, asg8_v *t8, uint8_t lindel, uint64_t tcut, uint64_t site_sc, int64_t h0_w, asg32_v *b32,
int64_t hap_cov_match, int64_t hap_cov_unmatch, int64_t het_cov_a, int64_t hom_cov_a, int64_t n_hap, double hf_rate, overlap_region *rchn, int64_t rref_len);
int64_t hap_cov_match, int64_t hap_cov_unmatch, int64_t het_cov_a, int64_t hom_cov_a, int64_t n_hap, double hf_rate, overlap_region *rchn, int64_t rref_len, int64_t flag_hf_ov_cut, int64_t min_re_cut, double min_re_rt, int64_t min_hpc_re_cut, double min_hpc_re_rt, int8_t is_hpc_flt);
void set_exact_exz(bit_extz_t *exz, int64_t qs, int64_t qe, int64_t ts, int64_t te);
void push_alnw(overlap_region *aux_o, bit_extz_t *exz);
void cal_exz_global(char *pstr, int32_t pn, char *tstr, int32_t tn, int32_t thre, bit_extz_t *ez);