X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bam2bcf.h;h=570990e4174caec6220c130e0c343dec1d6dd562;hb=599bea10bc3487a0cbdf505e792a21a13fee2b11;hp=e39ab7bfe90a6a6ec2a51f27e1325c32a1e4f2b5;hpb=917ed8ca3a137ff2c2db887c0c72f3cce09f7df4;p=samtools.git

diff --git a/bam2bcf.h b/bam2bcf.h
index e39ab7b..570990e 100644
--- a/bam2bcf.h
+++ b/bam2bcf.h
@@ -13,6 +13,8 @@ typedef struct __bcf_callaux_t {
 	// for internal uses
 	int max_bases;
 	int indel_types[4];
+	int maxins, indelreg;
+	char *inscns;
 	uint16_t *bases;
 	errmod_t *e;
 } bcf_callaux_t;
@@ -38,7 +40,8 @@ extern "C" {
 	void bcf_call_destroy(bcf_callaux_t *bca);
 	int bcf_call_glfgen(int _n, const bam_pileup1_t *pl, int ref_base, bcf_callaux_t *bca, bcf_callret1_t *r);
 	int bcf_call_combine(int n, const bcf_callret1_t *calls, int ref_base /*4-bit*/, bcf_call_t *call);
-	int bcf_call2bcf(int tid, int pos, bcf_call_t *bc, bcf1_t *b, bcf_callret1_t *bcr, int is_SP);
+	int bcf_call2bcf(int tid, int pos, bcf_call_t *bc, bcf1_t *b, bcf_callret1_t *bcr, int is_SP,
+					 const bcf_callaux_t *bca, const char *ref);
 	int bcf_call_gap_prep(int n, int *n_plp, bam_pileup1_t **plp, int pos, bcf_callaux_t *bca, const char *ref);
 
 #ifdef __cplusplus