X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=samtools.git;a=blobdiff_plain;f=bcftools%2Fbcf.h;h=822ae5cf80fd7f9dc375259524935c933f088323;hp=f545a916879ee9f527c3e12b622926dfaf96971b;hb=0f906dafb2ad22371a753557562ef95c3034480d;hpb=c34624801b980425af68c3c431423c72b18c14fe

diff --git a/bcftools/bcf.h b/bcftools/bcf.h
index f545a91..822ae5c 100644
--- a/bcftools/bcf.h
+++ b/bcftools/bcf.h
@@ -28,6 +28,8 @@
 #ifndef BCF_H
 #define BCF_H
 
+#define BCF_VERSION "0.1.17-dev (r973:277)"
+
 #include <stdint.h>
 #include <zlib.h>
 
@@ -146,6 +148,14 @@ extern "C" {
 	int bcf_is_indel(const bcf1_t *b);
 	bcf_hdr_t *bcf_hdr_subsam(const bcf_hdr_t *h0, int n, char *const* samples, int *list);
 	int bcf_subsam(int n_smpl, int *list, bcf1_t *b);
+	// move GT to the first FORMAT field
+	int bcf_fix_gt(bcf1_t *b);
+	// update PL generated by old samtools
+	int bcf_fix_pl(bcf1_t *b);
+	// convert PL to GLF-like 10-likelihood GL
+	int bcf_gl10(const bcf1_t *b, uint8_t *gl);
+	// convert up to 4 INDEL alleles to GLF-like 10-likelihood GL
+	int bcf_gl10_indel(const bcf1_t *b, uint8_t *gl);
 
 	// string hash table
 	void *bcf_build_refhash(bcf_hdr_t *h);