Dockstore.local.json

{
  "reads": [
  {
  "path":"https://dcc.icgc.org/api/v1/download?fn=/PCAWG/reference_data/data_for_testing/hg19.chr22.5x.normal.bam",
  "class":"File"
  },
  {"path":"https://dcc.icgc.org/api/v1/download?fn=/PCAWG/reference_data/data_for_testing/hg19.chr22.5x.normal2.bam",
  "class":"File"
  }
  ],
  "reference_gz_amb": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/reference/genome.fa.gz.64.amb",
    "class": "File"
  },
  "reference_gz_sa": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/reference/genome.fa.gz.64.sa",
    "class": "File"
  },
  "reference_gz_pac": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/reference/genome.fa.gz.64.pac",
    "class": "File"
  },
  "reference_gz_ann": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/reference/genome.fa.gz.64.ann",
    "class": "File"
  },
  "reference_gz_bwt": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/reference/genome.fa.gz.64.bwt",
    "class": "File"
  },
  "reference_gz_fai": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/reference/genome.fa.gz.fai",
    "class": "File"
  },
  "reference_gz": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/reference/genome.fa.gz",
    "class": "File"
  },
  "merged_output_unmapped_bai": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/outputs/merged_output.unmapped.bam.bai",
    "class": "File"
  },
  "merged_output_bam": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/outputs/merged_output.bam",
    "class": "File"
  },
  "merged_output_unmapped_bam": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/outputs/merged_output.unmapped.bam",
    "class": "File"
  },
  "merged_output_bai": {
    "path": "/home/ubuntu/gitroot/Seqware-BWA-Workflow/outputs/merged_output.bam.bai",
    "class": "File"
  }
}