support trio indels

[samtools.git] / bcftools / call1.c

diff --git a/bcftools/call1.c b/bcftools/call1.c
index 69bd5f7700698dfe39207695328220a4d8eba248..b0baee2ea1b346e24eadd2d9bccea0ed6e886f6a 100644 (file)
--- a/bcftools/call1.c
+++ b/bcftools/call1.c
@@ -495,7 +495,7 @@ int bcfview(int argc, char *argv[])
                        if (!(l > begin && end > b->pos)) continue;
                }
                ++n_processed;
-               if (vc.flag & VC_QCNT) { // summarize the difference
+               if ((vc.flag & VC_QCNT) && !is_indel) { // summarize the difference
                        int x = bcf_min_diff(b);
                        if (x > 255) x = 255;
                        if (x >= 0) ++qcnt[x];