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  1. {
  2. "{{ project_name }}.benchmarking_dir": "{{ benchmarking_dir }}",
  3. "{{ project_name }}.vcf_F7": "{{ vcf_F7 }}",
  4. "{{ project_name }}.vcf_M8": "{{ vcf_M8 }}",
  5. "{{ project_name }}.fasta": "{{ fasta }}",
  6. "{{ project_name }}.BENCHMARKdocker": "{{ BENCHMARKdocker }}",
  7. "{{ project_name }}.vcf_D6": "{{ vcf_D6 }}",
  8. "{{ project_name }}.dbsnp_dir": "{{ dbsnp_dir }}",
  9. "{{ project_name }}.BEDTOOLSdocker": "{{ BEDTOOLSdocker }}",
  10. "{{ project_name }}.PICARDdocker": "{{ PICARDdocker }}",
  11. "{{ project_name }}.disk_size": "{{ disk_size }}",
  12. "{{ project_name }}.FASTQCdocker": "{{ FASTQCdocker }}",
  13. "{{ project_name }}.MULTIQCdocker": "{{ MULTIQCdocker }}",
  14. "{{ project_name }}.bed": "{{ bed }}",
  15. "{{ project_name }}.reference_bed_dict": "{{ reference_bed_dict }}",
  16. "{{ project_name }}.fastq_2_M8": "{{ fastq_2_M8 }}",
  17. "{{ project_name }}.project": "{{ project_name }}",
  18. "{{ project_name }}.pl": "{{ pl }}",
  19. "{{ project_name }}.fastq_1_M8": "{{ fastq_1_M8 }}",
  20. "{{ project_name }}.SMALLcluster_config": "{{ SMALLcluster_config }}",
  21. "{{ project_name }}.screen_ref_dir": "{{ screen_ref_dir }}",
  22. "{{ project_name }}.fastq_1_D5": "{{ fastq_1_D5 }}",
  23. "{{ project_name }}.dbmills_dir": "{{ dbmills_dir }}",
  24. "{{ project_name }}.BIGcluster_config": "{{ BIGcluster_config }}",
  25. "{{ project_name }}.fastq_screen_conf": "{{ fastq_screen_conf }}",
  26. "{{ project_name }}.fastq_2_D5": "{{ fastq_2_D5 }}",
  27. "{{ project_name }}.FASTQSCREENdocker": "{{ FASTQSCREENdocker }}",
  28. "{{ project_name }}.fastq_2_F7": "{{ fastq_2_F7 }}",
  29. "{{ project_name }}.fastq_1_D6": "{{ fastq_1_D6 }}",
  30. "{{ project_name }}.fastq_1_F7": "{{ fastq_1_F7 }}",
  31. "{{ project_name }}.REPLACE_SENTIEON_DOCKER": "{{ REPLACE_SENTIEON_DOCKER }}",
  32. "{{ project_name }}.DEEPVARIANT_DOCKER": "{{ DEEPVARIANT_DOCKER }}",
  33. "{{ project_name }}.QUALIMAPdocker": "{{ QUALIMAPdocker }}",
  34. "{{ project_name }}.vcf_D5": "{{ vcf_D5 }}",
  35. "{{ project_name }}.benchmark_region": "{{ benchmark_region }}",
  36. "{{ project_name }}.db_mills": "{{ db_mills }}",
  37. "{{ project_name }}.dbsnp": "{{ dbsnp }}",
  38. "{{ project_name }}.MENDELIANdocker": "{{ MENDELIANdocker }}",
  39. "{{ project_name }}.fastq_2_D6": "{{ fastq_2_D6 }}",
  40. "{{ project_name }}.DIYdocker": "{{ DIYdocker }}",
  41. "{{ project_name }}.ref_dir": "{{ ref_dir }}"
  42. }