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Merge branch 'master' into dev-lh3

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Heng Li
2021-03-18 16:11:43 -04:00
parent 8e98fb2276 e6e6dbf7b3
commit 863b20773a
8 changed files with 5650 additions and 2397 deletions
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CommandLines.h
+7 -4
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@@ -3,7 +3,7 @@
#include <pthread.h>
#define HA_VERSION "0.14-r312"
#define HA_VERSION "0.14.1-r314"
#define VERBOSE 0
@@ -72,7 +72,7 @@ typedef struct {
int purge_level_primary;
int purge_level_trio;
int purge_overlap_len;
int purge_overlap_len_hic;
///int purge_overlap_len_hic;
int recover_atg_cov_min;
int recover_atg_cov_max;
int hom_global_coverage;
@@ -82,8 +82,10 @@ typedef struct {
float max_hang_rate;
float min_drop_rate;
float max_drop_rate;
float purge_simi_rate;
float purge_simi_rate_hic;
float purge_simi_rate_l2;
float purge_simi_rate_l3;
float purge_simi_thres;
///float purge_simi_rate_hic;
long long small_pop_bubble_size;
long long large_pop_bubble_size;
@@ -92,6 +94,7 @@ typedef struct {
long long num_recorrected_bases;
long long mem_buf;
long long coverage;
int hap_occ;
} hifiasm_opt_t;