/usr/lib/R/site-library/Rsamtools/include/samtools/sam_header.h is in r-bioc-rsamtools 1.30.0-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 | #ifndef __SAM_HEADER_H__
#define __SAM_HEADER_H__
#ifdef __cplusplus
extern "C" {
#endif
void *sam_header_parse2(const char *headerText);
void *sam_header_merge(int n, const void **dicts);
void sam_header_free(void *header);
char *sam_header_write(const void *headerDict); // returns a newly allocated string
/*
// Usage example
const char *key, *val;
void *iter = sam_header_parse2(bam->header->text);
while ( iter = sam_header_key_val(iter, "RG","ID","SM" &key,&val) ) printf("%s\t%s\n", key,val);
*/
void *sam_header2key_val(void *iter, const char type[2], const char key_tag[2], const char value_tag[2], const char **key, const char **value);
char **sam_header2list(const void *_dict, char type[2], char key_tag[2], int *_n);
/*
// Usage example
int i, j, n;
const char *tags[] = {"SN","LN","UR","M5",NULL};
void *dict = sam_header_parse2(bam->header->text);
char **tbl = sam_header2tbl_n(h->dict, "SQ", tags, &n);
for (i=0; i<n; i++)
{
for (j=0; j<4; j++)
if ( tbl[4*i+j] ) printf("\t%s", tbl[4*i+j]);
else printf("-");
printf("\n");
}
if (tbl) free(tbl);
*/
char **sam_header2tbl_n(const void *dict, const char type[2], const char *tags[], int *n);
void *sam_header2tbl(const void *dict, char type[2], char key_tag[2], char value_tag[2]);
const char *sam_tbl_get(void *h, const char *key);
int sam_tbl_size(void *h);
void sam_tbl_destroy(void *h);
#ifdef __cplusplus
}
#endif
#endif
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