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tasks/bcftools.wdl
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| @@ -22,6 +22,7 @@ task bcftools { | |||
| bcftools view ${pon_vcf3} -Oz -o /cromwell_root/tmp/bcftools/$(basename $pon_vcf3).gz | |||
| cd /cromwell_root/tmp/bcftools | |||
| ls | |||
| bcftools index *.vcf.gz | |||
| bcftools merge -m all -f PASS,. --force-samples *.vcf.gz |\ | |||
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