Merge branch 'vsbuffalo-master' into develop

[samtools.git] / misc / plot-bamcheck

diff --git a/misc/plot-bamcheck b/misc/plot-bamcheck
index e5f5b4aba135ffed6785c600f2a57581f1a2e44f..1792c6ffe8c0647b640a075f301f6e6cd7293c5d 100755 (executable)
--- a/misc/plot-bamcheck
+++ b/misc/plot-bamcheck
@@ -663,7 +663,8 @@ sub plot_coverage
 
     my @vals;
     for my $cov (@{$$opts{dat}{COV}}) { push @vals,$$cov[2]; }
-    my $p99 = percentile(99.8,@vals);
+    my $i = percentile(99.8,@vals);
+    my $p99 = $$opts{dat}{COV}[$i][1];
 
     my $args = get_defaults($opts,"$$opts{prefix}coverage.png");
     my $fh = $$args{fh};