dna-seq-processing-wfs/example-params.json at main · icgc-argo-workflows/dna-seq-processing-wfs · GitHub

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{
  "study_id": "TEST-PR",
  "analysis_id": "08e7c5b1-b3af-4e20-a7c5-b1b3af2e206b",
  "analysis_metadata": "NO_FILE",
  "sequencing_files": [],
  "song_url": "https://song.rdpc-qa.cancercollaboratory.org",
  "score_url": "https://score.rdpc-qa.cancercollaboratory.org",
  "ref_genome_fa": "/nfs-dev-1-vol-qa-1/reference/tiny-grch38-chr11-530001-537000/tiny-grch38-chr11-530001-537000.fa",
  "cpus": 1,
  "mem": 1,
  "tempdir": "/icgc-argo-scratch",
  "download": {
    "song_url": "https://submission-song.rdpc-qa.cancercollaboratory.org",
    "song_cpus": 2,
    "song_mem": 2,
    "score_url": "https://submission-score.rdpc-qa.cancercollaboratory.org",
    "score_cpus": 3,
    "score_mem": 8
  },
  "seqDataToLaneBam": {
    "cpus": 2,
    "mem": 2
  },
  "bwaMemAligner": {
    "cpus": 2,
    "mem": 2
  },
  "bamMergeSortMarkdup": {
    "cpus": 2,
    "mem": 2
  },
  "payloadGenDnaAlignment": {
    "cpus": 2,
    "mem": 2
  },
  "readGroupUBamQC": {
    "cpus": 2,
    "mem": 2
  },
  "alignedSeqQC": {
    "cpus": 2,
    "mem": 2
  },
  "gatkCollectOxogMetrics": {
    "oxog_scatter": 3,
    "cpus": 2,
    "mem": 2
  },
  "payloadGenDnaSeqQc": {
    "cpus": 1,
    "mem": 1
  },
  "uploadAlignment": {
    "song_cpus": 2,
    "song_mem": 2,
    "score_cpus": 3,
    "score_mem": 8
  },
  "uploadQc": {
    "song_cpus": 1,
    "song_mem": 1,
    "score_cpus": 1,
    "score_mem": 1
  }
}