室间质评
Nevar pievienot vairāk kā 25 tēmas Tēmai ir jāsākas ar burtu vai ciparu, tā var saturēt domu zīmes ('-') un var būt līdz 35 simboliem gara.

pirms 5 gadiem
pirms 5 gadiem
pirms 5 gadiem
pirms 5 gadiem
pirms 5 gadiem
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  1. task multiqc {
  2. Array[File] read1_zip
  3. Array[File] read2_zip
  4. Array[File] txt1
  5. Array[File] txt2
  6. Array[File] zip
  7. Array[File] summary
  8. String docker
  9. String cluster_config
  10. String disk_size
  11. command <<<
  12. set -o pipefail
  13. set -e
  14. mkdir -p /cromwell_root/tmp/fastqc
  15. mkdir -p /cromwell_root/tmp/fastqscreen
  16. mkdir -p /cromwell_root/tmp/bamqc
  17. mkdir -p /cromwell_root/tmp/benchmark
  18. cp ${sep=" " read1_zip} ${sep=" " read2_zip} /cromwell_root/tmp/fastqc
  19. cp ${sep=" " txt1} ${sep=" " txt2} /cromwell_root/tmp/fastqscreen
  20. cp ${sep=" " zip} /cromwell_root/tmp/bamqc
  21. cp ${sep=" " summary} /cromwell_root/tmp/benchmark
  22. for i in `ls /cromwell_root/tmp/bamqc`
  23. do
  24. tar -zxvf $i -C /cromwell_root/tmp/bamqc
  25. done
  26. multiqc /cromwell_root/tmp/
  27. ls > filelist
  28. >>>
  29. runtime {
  30. docker:docker
  31. cluster:cluster_config
  32. systemDisk:"cloud_ssd 40"
  33. dataDisk:"cloud_ssd " + disk_size + " /cromwell_root/"
  34. }
  35. output {
  36. File filelist = "filelist"
  37. File multiqc_html = "multiqc_report.html"
  38. Array[File] multiqc_txt = glob("multiqc_data/*")
  39. }
  40. }