diff --git a/variants/cnvkit.sh b/variants/cnvkit.sh
index 7129b70b85d79db692773365d8ef41303b51c376..98c3363d298f42bc8c36a39d67c422a5644025f4 100755
--- a/variants/cnvkit.sh
+++ b/variants/cnvkit.sh
@@ -49,7 +49,7 @@ then
 elif [[ $capture == '/project/shared/bicf_workflow_ref/GRCh38/clinseq_prj/UTSWV2_2.panelplus.bed' ]]
 then
     normals="${index_path}/panelofnormals.panel1385V2_2.cnn"
-    target='panel1385V2-2.cnvkit_'
+    targets="${index_path}/panel1385V2-2.cnvkit_"
 fi
 
 echo "${targets}targets.bed"
diff --git a/variants/filter_cnvkit.pl b/variants/filter_cnvkit.pl
index 6dfdf441403379f1764b4ef450c8bfb20f0ad38a..2f60eef3d84c6973f4568c831486e6a5f98c5e6b 100755
--- a/variants/filter_cnvkit.pl
+++ b/variants/filter_cnvkit.pl
@@ -73,7 +73,7 @@ while (my $line = <CNR>) {
 }
 
 open IN, "<$file" or die $!;
-my $header = <IN>;
+$header = <IN>;
 while (my $line = <IN>) {
     chomp($line);
     my ($chr,$start,$end,$geneids,$log2,$cn,$depth,