example-params.rdpc-qa.json

{
  "first_retry_wait_time": 5,
  "max_retries": 5,
  "study_id": "TEST-QA",
  "analysis_id": "026e7dbd-8a7b-4ee1-ae7d-bd8a7b0ee120",
  "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/GRCh38_hla_decoy_ebv/GRCh38_hla_decoy_ebv.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": 4,
    "mem": 12
  },
	"bwaMemAligner": {
		"mem": 18,
		"cpus": 6
	},
  "bamMergeSortMarkdup": {
    "cpus": 4,
    "mem": 18
  },
  "payloadGenDnaAlignment": {
    "cpus": 2,
    "mem": 4
  },
  "readGroupUBamQC": {
    "cpus": 3,
    "mem": 6
  },
  "alignedSeqQC": {
    "cpus": 4,
    "mem": 10
  },
  "gatkCollectOxogMetrics": {
    "oxog_scatter": 3,
    "cpus": 3,
    "mem": 6
  },
  "payloadGenDnaSeqQc": {
    "cpus": 2,
    "mem": 2
  },
  "uploadAlignment": {
    "song_cpus": 2,
    "song_mem": 2,
    "score_cpus": 4,
    "score_mem": 10
  },
  "uploadQc": {
    "song_cpus": 2,
    "song_mem": 2,
    "score_cpus": 2,
    "score_mem": 4
  },
  "cleanup": true
}