更新 'tasks/CNVkit.wdl'

tasks/CNVkit.wdl

@@ -35,12 +35,12 @@ task cnvkit{
         
        /root/miniconda2/bin/cnvkit.py batch  ${tumor_bam} \
                   -r ${sample}.reference.cnn/reference.cnn \
-                  --output-dir ${sample}.sampleid.cns \
+                  --output-dir ${sample}.cns \
                   -p $nt
                   
-       #ls ./
-       #/root/miniconda2/bin/cnvkit.py call ${sample}.sampleid.cns \
-       #           -o ${sample}.sampleid.call.cns
+       ls ./
+       /root/miniconda2/bin/cnvkit.py call ${sample}.cns/${sample}.cns \
+                  -o ${sample}.call.cns