{
  "GATKJar": {
    "class": "File",
    "path": "/home/ubuntu/GenomeAnalysisTK-3.7/GenomeAnalysisTK.jar"
  },
  "intervals": [
    "20"
  ],
  "knownSites": [
    {
      "class": "File",
      "path": "/home/ubuntu/data/b37/dbsnp_138.b37.vcf"
    },
    {
      "class": "File",
      "path": "/home/ubuntu/data/b37/Mills_and_1000G_gold_standard.indels.b37.vcf"
    }
  ],
  "read_group_library": "LIBRARY",
  "read_group_platform": "illumina",
  "read_group_platform_unit": "AB1234",
  "read_group_sample_name": "sample1",
  "reads": [
    {
      "class": "File",
      "path": "/home/ubuntu/exome-seq/SRR099967/SRR099967_1.fastq.gz"
    },
    {
      "class": "File",
      "path": "/home/ubuntu/exome-seq/SRR099967/SRR099967_2.fastq.gz"
    }
  ],
  "reference_genome": {
    "class": "File",
    "path": "/home/ubuntu/data/b37/human_g1k_v37.fasta"
  },
  "threads": 8
}

{
  "GATKJar": {
    "class": "File",
    "path": "/home/ubuntu/GenomeAnalysisTK-3.7/GenomeAnalysisTK.jar"
  },
  "intervals": [
    "20"
  ],
  "knownSites": [
    {
      "class": "File",
      "path": "/home/ubuntu/data/b37/dbsnp_138.b37.vcf"
    },
    {
      "class": "File",
      "path": "/home/ubuntu/data/b37/Mills_and_1000G_gold_standard.indels.b37.vcf"
    }
  ],
  "read_group_header": "ID:1\tLB:LIBRARY\tPL:illumina\tSM:sample1\tPU:AB1234",
  "reads": [
    {
      "class": "File",
      "path": "/home/ubuntu/exome-seq/SRR099967/SRR099967_1.fastq.gz"
    },
    {
      "class": "File",
      "path": "/home/ubuntu/exome-seq/SRR099967/SRR099967_2.fastq.gz"
    }
  ],
  "reference_genome": {
    "class": "File",
    "path": "/home/ubuntu/data/b37/human_g1k_v37.fasta"
  },
  "threads": 8
}

Move read_group_header to single value in json
Move read_group_header to single value in json
