r462: SAM primary flag not properly set

2017-10-04 13:11:29 -04:00 · 2017-10-04 13:11:29 -04:00 · 5babf41a38
parent 2a1e738a94
commit 5babf41a38
2 changed files with 3 additions and 1 deletions
--- a/main.c
+++ b/main.c
@ -6,7 +6,7 @@
 #include "mmpriv.h"
 #include "getopt.h"

-#define MM_VERSION "2.2-r461-dirty"
+#define MM_VERSION "2.2-r462-dirty"

 #ifdef __linux__
 #include <sys/resource.h>
--- a/pe.c
+++ b/pe.c
@ -143,6 +143,8 @@ void mm_pair(void *km, int max_gap_ref, int pe_bonus, int sub_diff, int match_sc
 			if (r[1]->mapq < 1) r[1]->mapq = 1;
 		}
 	}
+	mm_set_sam_pri(n_regs[0], regs[0]);
+	mm_set_sam_pri(n_regs[1], regs[1]);

 	kfree(km, a);
 	kfree(km, sc.a);