Dockstore_cwl.json

{
  "tumor":
  {
    "path":"/mnt/data/ad4aeedc224c6be5e21e26c038a43df4.bam",
    "class":"File"
  },
  "normal":
  {
    "path":"/mnt/data/9f8f6f03df6d100c90a761164800a42c.bam",
    "class":"File"
  },
  "refFrom":
  {
    "path":"https://dcc.icgc.org/api/v1/download?fn=/PCAWG/reference_data/pcawg-sanger/GRCh37d5_CGP_refBundle.tar.gz",
    "class":"File"
  },
  "bbFrom":
  {
    "path":"https://dcc.icgc.org/api/v1/download?fn=/PCAWG/reference_data/pcawg-sanger/GRCh37d5_battenberg.tar.gz",
    "class":"File"
  },
  "somatic_snv_mnv_tar_gz":
  {
    "path":"/mnt/output/somatic_snv_mnv_tar_gz",
    "class":"File"
  },
  "somatic_cnv_tar_gz":
  {
    "path":"/mnt/output/somatic_cnv_tar_gz",
    "class":"File"
  },
  "somatic_sv_tar_gz":
  {
    "path":"/mnt/output/somatic_sv_tar_gz",
    "class":"File"
  },
  "somatic_indel_tar_gz":
  {
    "path":"/mnt/output/somatic_indel_tar_gz",
    "class":"File"
  },
  "somatic_imputeCounts_tar_gz":
  {
    "path":"/mnt/output/somatic_imputeCounts_tar_gz",
    "class":"File"
  },
  "somatic_genotype_tar_gz":
  {
    "path":"/mnt/output/somatic_genotype_tar_gz",
    "class":"File"
  },
  "somatic_verifyBamId_tar_gz":
  {
    "path":"/mnt/output/somatic_verifyBamId_tar_gz",
    "class":"File"
  }
}