test_wdl_config.json

{
  "jumping_hare.pathToReference": "/path/to/reference/grch38_ref.tar.bz2",
  "jumping_hare.reference": "GRCh38_full_analysis_set_plus_decoy_hla.fa",  
  "jumping_hare.sample_suffix": "_supersmall.bam",
  "jumping_hare.typeOfGPU_HC":"NVIDIAA100_PCIE_40GB",
  "jumping_hare.cpu_dv": 32,
  "jumping_hare.num_ram_dv": 100,
  "jumping_hare.num_ram_hc": 100,
  "jumping_hare.typeOfGPU_DV":"NVIDIAA100_PCIE_40GB",
  "jumping_hare.num_gpu_HC": 2,
  "jumping_hare.num_gpu_dv": 2,
  "jumping_hare.glnexus_ram_hc": 250,
  "jumping_hare.glnexus_ram_dv": 250,
  "jumping_hare.cram_files":  [
  [
    {
      "cram": "/path/to/NA12891_supersmall.bam",
      "crai": "/path/to/NA12891_supersmall.bam.bai"
    },
    {
      "cram": "/path/to/NA12892_supersmall.bam",
      "crai": "/path/to/NA12892_supersmall.bam.bai"
    },
    {
      "cram": "/path/to/NA12878_supersmall.bam",
      "crai": "/path/to/NA12878_supersmall.bam.bai"
    }
  ]
  ],
  "jumping_hare.naive_inheritance_trio_py2":"/path/to/naive_inheritance_trio_py2.py",
  "jumping_hare.test_intersect":"/path/to/test_intersect.py",
  "jumping_hare.filter_glnexuscombined_updated":"/path/to/filter_glnexuscombined_updated.py",
  "jumping_hare.trios":[
  {
    "father" :"NA12891",
    "mother": "NA12892",
    "child": "NA12878"
  }
  ],
  "jumping_hare.regions": "/path/to/regions.tar.bz2"
}