works

[samtools.git] / bam2bcf.c

diff --git a/bam2bcf.c b/bam2bcf.c
index f69684dc8c31acce2636b17a8da95374ecb3231a..a51a406f249c05834b0d8e20f49403d5ed29a3b6 100644 (file)
--- a/bam2bcf.c
+++ b/bam2bcf.c
@@ -87,9 +87,9 @@ int bcf_call_glfgen(int _n, const bam_pileup1_t *pl, int ref_base, bcf_callaux_t
                if (min_dist > p->qpos) min_dist = p->qpos;
                if (min_dist > CAP_DIST) min_dist = CAP_DIST;
                r->anno[1<<2|is_diff<<1|0] += baseQ;
-               r->anno[1<<2|is_diff<<1|1] += baseQ * baseQ;
+               r->anno[1<<2|is_diff<<1|1] += baseQ * baseQ;    // FIXME: signed int is not enough for thousands of samples
                r->anno[2<<2|is_diff<<1|0] += mapQ;
-               r->anno[2<<2|is_diff<<1|1] += mapQ * mapQ;
+               r->anno[2<<2|is_diff<<1|1] += mapQ * mapQ;              // FIXME: signed int is not enough for thousands of samples
                r->anno[3<<2|is_diff<<1|0] += min_dist;
                r->anno[3<<2|is_diff<<1|1] += min_dist * min_dist;
        }