X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bcftools%2Fbcf.c;h=24728dbe1515e7cc1171a8cc08f842bafa167d5e;hb=70c740facc966321754c6bfcc6d61ea056480638;hp=e3daaeb5786916085d2725e703d01e1d18a6e2dd;hpb=ec294adf095b60c90e57e31f3af1335138c5a22a;p=samtools.git

diff --git a/bcftools/bcf.c b/bcftools/bcf.c
index e3daaeb..24728db 100644
--- a/bcftools/bcf.c
+++ b/bcftools/bcf.c
@@ -269,7 +269,7 @@ void bcf_fmt_core(const bcf_hdr_t *h, bcf1_t *b, kstring_t *s)
                 if ( ploidy==1 )
                 {
                     if ( y>>7&1 )
-                        kputsn(".", 3, s);
+                        kputc('.', s);
                     else 
                         kputc('0' + (y>>3&7), s);
                 }
@@ -323,6 +323,50 @@ int bcf_append_info(bcf1_t *b, const char *info, int l)
 	return 0;
 }
 
+int remove_tag(char *str, const char *tag, char delim)
+{
+    char *tmp = str, *p;
+    int len_diff = 0, ori_len = strlen(str);
+    while ( *tmp && (p = strstr(tmp,tag)) )
+    {
+        if ( p>str )
+        {
+            if ( *(p-1)!=delim ) { tmp=p+1; continue; } // shared substring
+            p--;
+        }
+        char *q=p+1;
+        while ( *q && *q!=delim ) q++;
+        if ( p==str && *q ) q++;        // the tag is first, don't move the delim char
+        len_diff += q-p;
+        if ( ! *q ) { *p = 0; break; }  // the tag was last, no delim follows
+        else
+            memmove(p,q,ori_len-(int)(p-str)-(int)(q-p));  // *q==delim
+    }
+    if ( len_diff==ori_len )
+        str[0]='.', str[1]=0, len_diff--;
+
+    return len_diff;
+}
+
+
+void rm_info(kstring_t *s, const char *key)
+{
+    char *p = s->s; 
+    int n = 0;
+    while ( n<4 )
+    {
+        if ( !*p ) n++;
+        p++;
+    }
+    char *q = p+1; 
+    while ( *q && q-s->s<s->l ) q++;
+
+    int nrm = remove_tag(p, key, ';');
+    if ( nrm )
+        memmove(q-nrm, q, s->s+s->l-q+1);
+    s->l -= nrm;
+}
+
 int bcf_cpy(bcf1_t *r, const bcf1_t *b)
 {
 	char *t1 = r->str;