Merge commit 'upstream/0.1.16'

[samtools.git] / bcftools / bcf.c

diff --git a/bcftools/bcf.c b/bcftools/bcf.c
index 080b6fefcfc6ba8af057bd0a9792f620ac061f7a..84a8e767ec58adb397630f609a52670779f99c89 100644 (file)
--- 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;