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chhylp123
2026-03-20 16:06:06 -04:00
parent 5e5a1568ed
commit 9a2884f518
6 changed files with 402 additions and 57 deletions
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Correct.h
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@@ -1437,6 +1437,8 @@ bit_extz_t *exz, double e_rate, int64_t qs);
uint64_t gen_hc_r_alin_adp_smp_ff_ec(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, bit_extz_t *exz, int64_t rid, asg64_v *sp, uint64_t ocw, uint32_t *ocn, uint32_t *osc, uint64_t max_n_chain, uint64_t max_n_chain_f, uint64_t chain_cutoff, uint64_t ave_cov_min);
uint64_t gen_hc_r_alin_adp_smp(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, 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, uint8_t chem_drop, double align_gap_rate, int64_t align_gap_max, uint64_t sec_aln_win, uint64_t sec_aln_cov, double sec_aln_err_rate, double sec_aln_max,
asg64_v *sp, uint64_t ocw, uint8_t *hpf, uint32_t *a_cu, uint32_t *a_ci, uint32_t *ocn, uint32_t *osc, uint64_t *idx_cu, uint64_t n_cu, asg64_v *bp, uint64_t max_n_chain, uint64_t max_n_chain_f, uint64_t chain_cutoff, uint64_t ave_cov_min, uint8_t set_match, uint8_t is_dedup);
uint64_t gen_hc_r_alin_adp_mmp(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, 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, uint8_t chem_drop, double align_gap_rate, int64_t align_gap_max, uint64_t sec_aln_win, uint64_t sec_aln_cov, double sec_aln_err_rate, double sec_aln_max,
asg64_v *sp, uint64_t ocw, uint8_t *hpf, asg32_v *v32, asg64_v *bp, uint64_t max_n_chain, uint64_t max_n_chain_f, uint64_t chain_cutoff, uint64_t ave_cov_min, uint8_t set_match);
void gen_hc_r_alin_adv_adp_smp(gen_hc_aln_t *ez, uint32_t *a_cu, uint32_t *a_ci, uint32_t *ocn, uint32_t *osc, uint64_t *idx_cu, uint64_t n_cu, uint8_t set_match);
void pp_chn_a(overlap_region *z, Candidates_list *cl, uint8_t is_raw);
uint64_t gen_hc_r_alin(overlap_region_alloc* ol, Candidates_list *cl, All_reads *rref, UC_Read* qu, UC_Read* tu, 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, uint8_t chem_drop, double align_gap_rate, int64_t align_gap_max, uint64_t sec_aln_win, uint64_t sec_aln_cov, double sec_aln_err_rate, double sec_aln_max, asg64_v *kp, uint8_t *hpf);