更新 'tasks/CNVkit.wdl'

tasks/CNVkit.wdl

@@ -96,7 +96,13 @@ task cnvkit{
        /root/miniconda2/bin/cnvkit.py call ${sample}.cns/${sample}.cns --center-at $center \
                   -o ${sample}.call.cns
                   
-       cp ${sample}.call.cns ${sample}.call.cns.bed
+       
+           # Plot the results
+    	/root/miniconda2/bin/cnvkit.py scatter ${sample}.cns/${sample}.cnr -s ${sample}.call.cns -o ${sample}.scatter.pdf
+    	/root/miniconda2/bin/cnvkit.py diagram ${sample}.cns/${sample}.cnr -s ${sample}.call.cns -o ${sample}.diagram.pdf
+    	/root/miniconda2/bin/cnvkit.py heatmap ${sample}.cns/${sample}.cnr ${sample}.call.cns -o ${sample}.heatmap.pdf
+       
+        cp ${sample}.call.cns ${sample}.call.cns.bed