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PoN
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Generate the Panel of Normal files for TNseq and TNscope.
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${ item.name }
Create branch ${ searchTerm }
from 'master'
${ noResults }
PoN/defaults

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  1. {

  2.   "fastq_1": "",

  3.   "fastq_2": "",

  4.   "deduped_bam": "",

  5.   "deduped_bam_index": "",

  6.   "fasta": "GRCh38.d1.vd1.fa",

  7.   "ref_dir": "oss://pgx-reference-data/GRCh38.d1.vd1/",

  8.   "dbsnp": "dbsnp_146.hg38.vcf",

  9.   "dbsnp_dir": "oss://pgx-reference-data/GRCh38.d1.vd1/",

  10.   "SENTIEON_INSTALL_DIR": "/opt/sentieon-genomics",

  11.   "SENTIEON_LICENSE": "192.168.0.55:8990",

  12.   "dbmills_dir": "oss://pgx-reference-data/GRCh38.d1.vd1/",

  13.   "db_mills": "Mills_and_1000G_gold_standard.indels.hg38.vcf",

  14.   "sentieon_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/sentieon-genomics:v202010.02",

  15.   "regions": "oss://pgx-reference-data/bed/cbcga/S07604514_Padded.bed",

  16.   "disk_size": "200",

  17.   "cluster_config": "OnDemand bcs.a2.3xlarge img-ubuntu-vpc"

  18. }