gatk-cocleaning-workflow.input.yaml

tumor_bam: 
  class: File
  path: /mnt/gatk-cocleaning-resources/testexome.pair0.normal.bam
normal_bam: 
  class: File
  path: /mnt/gatk-cocleaning-resources/testexome.pair0.tumour.bam
reference:
  class: File
  path: /mnt/gatk-cocleaning-resources/Homo_sapiens_assembly19.fasta
knownIndels: 
  - class: File
    path: /mnt/gatk-cocleaning-resources/1000G_phase1.indels.hg19.sites.fixed.vcf
  - class: File
    path: /mnt/gatk-cocleaning-resources/Mills_and_1000G_gold_standard.indels.hg19.sites.fixed.vcf
knownSites:
  - class: File
    path: /mnt/gatk-cocleaning-resources/dbsnp_132_b37.leftAligned.vcf