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.
lh3 · Oct 22, 2014 · 3d129be · 3d129be
1 parent 4177d6c
commit 3d129be
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/bwamem.c b/bwamem.c
@@ -59,7 +59,7 @@ mem_opt_t *mem_opt_init()
 	o->pen_unpaired = 17;
 	o->pen_clip5 = o->pen_clip3 = 5;
 
-	o->max_mem_intv = 10;
+	o->max_mem_intv = 20;
 
 	o->min_seed_len = 19;
 	o->split_width = 10;

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