- task merge {
- Array[File] mother_vcf_gz
- Array[File] mother_vcf_idx
- Array[File] father_vcf_gz
- Array[File] father_vcf_idx
- Array[File] twins_vcf_gz
- Array[File] twins_vcf_idx
- String docker
- String cluster_config
- String disk_size
-
- command <<<
- rtg vcfmerge --force-merge-all --no-gzip -o LCL8.sister.consistent.merged.vcf ${sep=" " mother_vcf_gz}
-
- rtg vcfmerge --force-merge-all --no-gzip -o LCL7.sister.consistent.merged.vcf ${sep=" " father_vcf_gz}
-
- rtg vcfmerge --force-merge-all --no-gzip -o Twins.sister.consistent.vcf ${sep=" " twins_vcf_gz}
- >>>
-
- runtime {
- docker:docker
- cluster: cluster_config
- systemDisk: "cloud_ssd 40"
- dataDisk: "cloud_ssd " + disk_size + " /cromwell_root/"
- }
- output {
- File mother_merged_vcf = "LCL8.sister.consistent.merged.vcf"
- File father_merged_vcf = "LCL7.sister.consistent.merged.vcf"
- File twins_merged_vcf = "Twins.sister.consistent.merged.vcf"
- }
- }
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