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remove special character in cleanvcf1_23 (#238)
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wdl/CleanVcf1.wdl

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@@ -1360,7 +1360,7 @@ task CleanVcf1_23 {
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command <<<
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set -euxo pipefail
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cat <(zcat ~{cleanmale_vcf}|egrep "##") \
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<(paste <(zcat ~{cleanmale_vcf}|egrep -v "##") <(zcat ~{cleanfemale_vcf}|cut -f10-|egrep -v "##") <(zcat ~{cleanother_vcf}|cut -f10-|egrep -v "##") ) \å
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<(paste <(zcat ~{cleanmale_vcf}|egrep -v "##") <(zcat ~{cleanfemale_vcf}|cut -f10-|egrep -v "##") <(zcat ~{cleanother_vcf}|cut -f10-|egrep -v "##") ) \
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|bgzip \
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>combinedsex.vcf.gz
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tabix -p vcf combinedsex.vcf.gz

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