diff PsiCLASS-1.0.2/samtools-0.1.19/sam_header.h @ 0:903fc43d6227 draft default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/PsiCLASS-1.0.2/samtools-0.1.19/sam_header.h	Fri Mar 26 16:52:45 2021 +0000
@@ -0,0 +1,48 @@
+#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