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r943: change the default -y to 20, but ... 

for GRCh38 ALT, this is not enough. We need -y at least 40 to get high accuracy
because a locus at chr19 has 35 copies.
This commit is contained in:
Heng Li 2014-10-22 12:42:58 -04:00
parent 4177d6c2c7
commit 3d129be642
2 changed files with 2 additions and 2 deletions
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2
bwamem.c
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@ -59,7 +59,7 @@ mem_opt_t *mem_opt_init()
o->pen_unpaired = 17; o->pen_unpaired = 17;
o->pen_clip5 = o->pen_clip3 = 5; o->pen_clip5 = o->pen_clip3 = 5;
o->max_mem_intv = 10; o->max_mem_intv = 20;
o->min_seed_len = 19; o->min_seed_len = 19;
o->split_width = 10; o->split_width = 10;

2
main.c
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@ -4,7 +4,7 @@
#include "utils.h" #include "utils.h"
#ifndef PACKAGE_VERSION #ifndef PACKAGE_VERSION
#define PACKAGE_VERSION "0.7.10-r942-dirty" #define PACKAGE_VERSION "0.7.10-r943-dirty"
#endif #endif
int bwa_fa2pac(int argc, char *argv[]); int bwa_fa2pac(int argc, char *argv[]);