Merge commit 'upstream/0.1.7a.dfsg'

[samtools.git] / bam_maqcns.h

diff --git a/bam_maqcns.h b/bam_maqcns.h
index 36704d7bce51104e1a8d73ed233f8ebd4b8ce582..fa5489d13caad7c5c20489091302bfb5b2a5799d 100644 (file)
--- a/bam_maqcns.h
+++ b/bam_maqcns.h
@@ -7,7 +7,7 @@ struct __bmc_aux_t;
 
 typedef struct {
        float het_rate, theta;
-       int n_hap, cap_mapQ;
+       int n_hap, cap_mapQ, is_soap;
 
        float eta, q_r;
        double *fk, *coef;
@@ -24,7 +24,8 @@ typedef struct {
 
 typedef struct {
        int indel1, indel2;
-       int cnt1, cnt2, cnt_ambi, cnt_anti;
+       int cnt1, cnt2, cnt_anti;
+       int cnt_ref, cnt_ambi;
        char *s[2];
        //
        int gt, gl[2];