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r201: automatically adjust -N

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Heng Li
2020-04-05 22:43:01 -04:00
parent 3773610532
commit adbc65feda
5 changed files with 43 additions and 33 deletions
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CommandLines.h
+5 -4
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@@ -3,7 +3,7 @@
#include <pthread.h>
#define HA_VERSION "0.3.0-dirty-r200"
#define HA_VERSION "0.3.0-dirty-r201"
#define VERBOSE 0
@@ -18,10 +18,10 @@ typedef struct {
int k_mer_length;
int mz_win;
int bf_shift;
float high_factor;
int no_HPC;
int no_kmer_flt;
int max_n_chain;
float high_factor; // coverage cutoff set to high_factor*hom_cov
int max_n_chain; // fall-back max number of chains to consider
int k_mer_min_freq;
int k_mer_max_freq;
int load_index_from_disk;
@@ -56,7 +56,8 @@ extern hifiasm_opt_t asm_opt;
void init_opt(hifiasm_opt_t* asm_opt);
void destory_opt(hifiasm_opt_t* asm_opt);
void clear_opt(hifiasm_opt_t* asm_opt, int round);
void ha_opt_reset_to_round(hifiasm_opt_t* asm_opt, int round);
void ha_opt_update_cov(hifiasm_opt_t *opt, int hom_cov);
int CommandLine_process(int argc, char *argv[], hifiasm_opt_t* asm_opt);
double Get_T(void);