* This revision is SERIOUSLY BUGGY. Please NOT use it.

[samtools.git] / bam_aux.c

diff --git a/bam_aux.c b/bam_aux.c
index 6a82d9affb8e4d0341cf3ae26997e4e1bc72f594..89e99f281adb652e144eea0a77074a1c6cec023a 100644 (file)
--- a/bam_aux.c
+++ b/bam_aux.c
@@ -42,7 +42,6 @@ uint8_t *bam_aux_get(const bam1_t *b, const char tag[2])
        s = bam1_aux(b);
        while (s < b->data + b->data_len) {
                int x = (int)s[0]<<8 | s[1];
-               printf("%c%c\n", s[0], s[1]);
                s += 2;
                if (x == y) return s;
                __skip_tag(s);
@@ -181,70 +180,3 @@ char *bam_aux2Z(const uint8_t *s)
        if (type == 'Z' || type == 'H') return (char*)s;
        else return 0;
 }
-
-/******************
- * rg2lib related *
- ******************/
-
-int bam_strmap_put(void *rg2lib, const char *rg, const char *lib)
-{
-       int ret;
-       khint_t k;
-       khash_t(r2l) *h = (khash_t(r2l)*)rg2lib;
-       char *key;
-       if (h == 0) return 1;
-       key = strdup(rg);
-       k = kh_put(r2l, h, key, &ret);
-       if (ret) kh_val(h, k) = strdup(lib);
-       else {
-               fprintf(stderr, "[bam_rg2lib_put] duplicated @RG ID: %s\n", rg);
-               free(key);
-       }
-       return 0;
-}
-
-const char *bam_strmap_get(const void *rg2lib, const char *rg)
-{
-       const khash_t(r2l) *h = (const khash_t(r2l)*)rg2lib;
-       khint_t k;
-       if (h == 0) return 0;
-       k = kh_get(r2l, h, rg);
-       if (k != kh_end(h)) return (const char*)kh_val(h, k);
-       else return 0;
-}
-
-void *bam_strmap_dup(const void *rg2lib)
-{
-       const khash_t(r2l) *h = (const khash_t(r2l)*)rg2lib;
-       khash_t(r2l) *g;
-       khint_t k, l;
-       int ret;
-       if (h == 0) return 0;
-       g = kh_init(r2l);
-       for (k = kh_begin(h); k < kh_end(h); ++k) {
-               if (kh_exist(h, k)) {
-                       char *key = strdup(kh_key(h, k));
-                       l = kh_put(r2l, g, key, &ret);
-                       kh_val(g, l) = strdup(kh_val(h, k));
-               }
-       }
-       return g;
-}
-
-void *bam_strmap_init()
-{
-       return (void*)kh_init(r2l);
-}
-
-void bam_strmap_destroy(void *rg2lib)
-{
-       khash_t(r2l) *h = (khash_t(r2l)*)rg2lib;
-       khint_t k;
-       if (h == 0) return;
-       for (k = kh_begin(h); k < kh_end(h); ++k) {
-               if (kh_exist(h, k)) {
-                       free((char*)kh_key(h, k)); free(kh_val(h, k));
-               }
-       }
-       kh_destroy(r2l, h);
-}