test

tasks/batch.wdl

@@ -41,9 +41,9 @@ task batch {
         --method ${method} --segment-method ${segment_method} \
         --targets amplicon.bed ${access_opt} ${annotate_opt} \
         --fasta hg38.fa ${reference_opt} \
-        --output-reference ~/${sample_id}.reference.cnn \
+        --output-reference ${sample_id}.reference.cnn \
         --output-dir ./results/ \
-        --drop-low-coverage --diagram --scatter
+        --drop-low-coverage --diagram --scatter --antitarget-avg-size 200000
     >>>
 
     runtime {