X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=samtools.git;a=blobdiff_plain;f=bcftools%2Fbcf.c;h=84a8e767ec58adb397630f609a52670779f99c89;hp=080b6fefcfc6ba8af057bd0a9792f620ac061f7a;hb=8a8212c76299ff302cdd41be704d8e0308bd2b1b;hpb=e42445c748ed193f8d0a4277a844fa848f30c132

diff --git a/bcftools/bcf.c b/bcftools/bcf.c
index 080b6fe..84a8e76 100644
--- a/bcftools/bcf.c
+++ b/bcftools/bcf.c
@@ -103,8 +103,14 @@ int bcf_sync(bcf1_t *b)
 	ks_tokaux_t aux;
 	// set ref, alt, flt, info, fmt
 	b->ref = b->alt = b->flt = b->info = b->fmt = 0;
-	for (p = b->str, n = 0; p < b->str + b->l_str; ++p)
-		if (*p == 0 && p+1 != b->str + b->l_str) tmp[n++] = p + 1;
+	for (p = b->str, n = 0; p < b->str + b->l_str; ++p) {
+		if (*p == 0 && p+1 != b->str + b->l_str) {
+			if (n == 5) {
+				++n;
+				break;
+			} else tmp[n++] = p + 1;
+		}
+	}
 	if (n != 5) {
 		fprintf(stderr, "[%s] incorrect number of fields (%d != 5) at %d:%d\n", __func__, n, b->tid, b->pos);
 		return -1;