更新 'tasks/battenberg.wdl'

tasks/battenberg.wdl

@@ -18,7 +18,10 @@ task battenberg {
         samtools index  ./${tumor_id}.sorted.deduped.nochr.bam
         cp /opt/battenberg_reference/battenberg_wgs.R ./
         Rscript ./battenberg_wgs.R -t ${tumor_id} -n ${normal_id} --nb ${normal_id}.sorted.deduped.nochr.bam --tb  ${tumor_id}.sorted.deduped.nochr.bam --cpu 10 --sex female -o ./
-         
+        mkdir ${tumor_id}_chr_png
+        cp ${tumor_id}_subclones_chr*.png ./${tumor_id}_chr_png/
+        tar zcvf ./${tumor_id}_chr_png.tgz ./${tumor_id}_chr_png/
+
     >>>
 
     runtime {
@@ -38,7 +41,7 @@ task battenberg {
         File germline_png = "${tumor_id}.germline.png"
         File coverage_png = "${tumor_id}_coverage.png"
         File alleleratio_png = "${tumor_id}_alleleratio.png"
-        
+        File chr_png = "${tumor_id}_chr_png.tgz"
     }
 
 }