更新 'tasks/TNseq.wdl'

tasks/TNseq.wdl

@@ -27,19 +27,19 @@ task sentieon_TNseq{
         export SENTIEON_LICENSE=${SENTIEON_LICENSE}
         nt=$(nproc)
 
-        if [${regions}]; then
-            INTERVAL="--interval ${regions} --interval_padding ${interval_padding}"
-        else:
+        #if [${regions}]; then
+        #    INTERVAL="--interval ${regions} --interval_padding ${interval_padding}"
+        #else:
             INTERVAL=""
-        fi
+        #fi
 
-        if [${normal_bam}];then
+        #if [${normal_bam}];then
             INPUT="-i ${tumor_bam} -i ${normal_bam}"
             SAMPLE="--tumor_sample ${tumor_name} --normal_sample ${normal_name}"
-        else:
-           INPUT="-i ${tumor_bam}"
-           SAMPLE="--tumor_sample ${tumor_name}"
-        fi
+        #else:
+        #   INPUT="-i ${tumor_bam}"
+        #   SAMPLE="--tumor_sample ${tumor_name}"
+        #fi
 
         sentieon driver -t $nt -r ${ref_dir}/${ref_fasta} \
         $INPUT $INTERVAL \