bcftools.1 and samtools.1 were merged in upstream release 0.1.17.

[samtools.git] / bam.h

diff --git a/bam.h b/bam.h
index bc8e3f19edf59a1aa4ef9aaa6a57e44b08b60af6..246b020d679a07f073cfbae8dc40a8d57b501d25 100644 (file)
--- a/bam.h
+++ b/bam.h
@@ -33,14 +33,14 @@
 
   BAM library provides I/O and various operations on manipulating files
   in the BAM (Binary Alignment/Mapping) or SAM (Sequence Alignment/Map)
-  format. It now supports importing from or exporting to TAM, sorting,
+  format. It now supports importing from or exporting to SAM, sorting,
   merging, generating pileup, and quickly retrieval of reads overlapped
   with a specified region.
 
   @copyright Genome Research Ltd.
  */
 
-#define BAM_VERSION "0.1.14 (r933:170)"
+#define BAM_VERSION "0.1.17 (r973:277)"
 
 #include <stdint.h>
 #include <stdlib.h>
@@ -264,6 +264,12 @@ typedef struct __bam_iter_t *bam_iter_t;
  */
 extern int bam_is_be;
 
+/*!
+  @abstract Verbose level between 0 and 3; 0 is supposed to disable all
+  debugging information, though this may not have been implemented.
+ */
+extern int bam_verbose;
+
 /*! @abstract Table for converting a nucleotide character to the 4-bit encoding. */
 extern unsigned char bam_nt16_table[256];
 
@@ -740,4 +746,13 @@ static inline bam1_t *bam_dup1(const bam1_t *src)
        return b;
 }
 
+static inline int bam_aux_type2size(int x)
+{
+       if (x == 'C' || x == 'c' || x == 'A') return 1;
+       else if (x == 'S' || x == 's') return 2;
+       else if (x == 'I' || x == 'i' || x == 'f') return 4;
+       else return 0;
+}
+
+
 #endif