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added --min-hist-cnt for #49

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Heng Li
2020-10-26 16:28:30 -04:00
parent b2b4624cea
commit eddb8173da
6 changed files with 21 additions and 12 deletions
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6
htab.cpp
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@@ -888,7 +888,7 @@ void *ha_ft_gen(const hifiasm_opt_t *asm_opt, All_reads *rs, int *hom_cov, int i
if(!(ex_flag & HAF_SKIP_READ))
{
ha_ct_hist(h, cnt, asm_opt->thread_num);
peak_hom = ha_analyze_count(YAK_N_COUNTS, cnt, &peak_het);
peak_hom = ha_analyze_count(YAK_N_COUNTS, asm_opt->min_hist_kmer_cnt, cnt, &peak_het);
if (hom_cov) *hom_cov = peak_hom;
if (peak_hom > 0) fprintf(stderr, "[M::%s] peak_hom: %d; peak_het: %d\n", __func__, peak_hom, peak_het);
///in default, asm_opt->high_factor = 5.0
@@ -925,7 +925,7 @@ ha_pt_t *ha_pt_gen(const hifiasm_opt_t *asm_opt, const void *flt_tab, int read_f
yak_realtime(), yak_cpu_usage(), (long)ct->tot);
ha_ct_hist(ct, cnt, asm_opt->thread_num);
fprintf(stderr, "[M::%s] count[%d] = %ld (for sanity check)\n", __func__, YAK_MAX_COUNT, (long)cnt[YAK_MAX_COUNT]);
peak_hom = ha_analyze_count(YAK_N_COUNTS, cnt, &peak_het);
peak_hom = ha_analyze_count(YAK_N_COUNTS, asm_opt->min_hist_kmer_cnt, cnt, &peak_het);
if (hom_cov) *hom_cov = peak_hom;
if (het_cov) *het_cov = peak_het;
if (peak_hom > 0) fprintf(stderr, "[M::%s] peak_hom: %d; peak_het: %d\n", __func__, peak_hom, peak_het);
@@ -1184,4 +1184,4 @@ int load_pt_index(void **r_flt_tab, ha_pt_t **r_ha_idx, All_reads* r, hifiasm_op
free(gfa_name);
return 1;
}
}