更新 'tasks/bcftools_concat.wdl'

tasks/bcftools_concat.wdl

@@ -16,8 +16,8 @@ task bcftools {
     
     bcftools concat -a ${vcf_indels} ${vcf_snvs} -Oz -o ${sample_id}.strelka.vcf.gz          
     bcftools norm -m -both ${sample_id}.strelka.vcf.gz -O z -o ${sample_id}.strelka.norm.vcf.gz
-    bcftools view -O z -f 'PASS' ${sample_id}.strelka.norm.vcf.gz -o ${sample_id}.strelka.PASS.vcf.gz
-    bcftools index -t ${sample_id}.strelka.PASS.vcf.gz
+    #bcftools view -O z -f 'PASS' ${sample_id}.strelka.norm.vcf.gz -o ${sample_id}.strelka.PASS.vcf.gz
+    bcftools index -t ${sample_id}.strelka.norm.vcf.gz
            
     ls ./