更新 'tasks/battenberg.wdl'

tasks/battenberg.wdl

@@ -15,8 +15,8 @@ task battenberg {
         cp ${normal_bam} ./${normal_id}.bam
         cp ${tumor_bam} ./${sample_id}.bam
 
-        samtools view -@ 28 -o ${normal_id}.sorted.deduped.sam ./${normal_id}.bam
-        samtools view -@ 28 -o ${sample_id}.sorted.deduped.sam ./${sample_id}.bam
+        samtools view -h -@ 28 -o ${normal_id}.sorted.deduped.sam ./${normal_id}.bam
+        samtools view -h -@ 28 -o ${sample_id}.sorted.deduped.sam ./${sample_id}.bam
 
         sed -i 's/chr//g' ${normal_id}.sorted.deduped.sam
         sed -i 's/chr//g' ${sample_id}.sorted.deduped.sam