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replicate_consensus.wdl 527B

5 years ago
5 years ago
5 years ago
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  1. task replicate_consensus {
  2. File chromo_file
  3. String chromo
  4. String docker
  5. String cluster_config
  6. String disk_size
  7. command <<<
  8. cat ${chromo_file} | grep -v '##' > ${chromo}.txt
  9. python /opt/replicates_consensus.py -vcf ${chromo}.txt -prefix ${chromo}
  10. >>>
  11. runtime {
  12. docker:docker
  13. cluster: cluster_config
  14. systemDisk: "cloud_ssd 40"
  15. dataDisk: "cloud_ssd " + disk_size + " /cromwell_root/"
  16. }
  17. output {
  18. File chromo_consensus = "${chromo}_all_summary.txt"
  19. File consensus_vcf = "${chromo}_consensus.vcf"
  20. }
  21. }