etc/gatk-wdl/paired-fastq-to-unmapped-bam.inputs.json

   1 {
   2   "##_Comment1": "Inputs",
   3   "ConvertPairedFastQsToUnmappedBamWf.readgroup_name": ["WGS-D3B", "WGS-Normal"],
   4   "ConvertPairedFastQsToUnmappedBamWf.sample_name": ["WGS-D3B", "WGS-Normal"],
   5   "ConvertPairedFastQsToUnmappedBamWf.fastq_1": ["/share/FGI2017B/users/gaoshengjie/NFSC/WGS/Clean/D3B/181031_X511_FCHNNMHCCXY_L5_wHAXPI090581-91_1.fq.gz","/share/FGI2017B/users/gaoshengjie/NFSC/WGS/Clean/wild/181031_X511_FCHNNMHCCXY_L6_wHAXPI090568-92_1.fq.gz"],
   6   "ConvertPairedFastQsToUnmappedBamWf.fastq_2": ["/share/FGI2017B/users/gaoshengjie/NFSC/WGS/Clean/D3B/181031_X511_FCHNNMHCCXY_L5_wHAXPI090581-91_2.fq.gz","/share/FGI2017B/users/gaoshengjie/NFSC/WGS/Clean/wild/181031_X511_FCHNNMHCCXY_L6_wHAXPI090568-92_2.fq.gz"],
   7   "ConvertPairedFastQsToUnmappedBamWf.library_name": ["Solexa-NA12878", "Solexa-NA12878"],
   8   "ConvertPairedFastQsToUnmappedBamWf.platform_unit": ["H06HDADXX130110.2.ATCACGAT", "H06HDADXX130110.1.ATCACGAT"],
   9   "ConvertPairedFastQsToUnmappedBamWf.run_date": ["2016-09-01T02:00:00+0200", "2016-09-01T02:00:00+0200"],
  10   "ConvertPairedFastQsToUnmappedBamWf.platform_name": ["illumina","illumina"],
  11   "ConvertPairedFastQsToUnmappedBamWf.sequencing_center": ["BGI","BGI"],
  12
  13   "##_Comment2": "Output ubam list",
  14   "ConvertPairedFastQsToUnmappedBamWf.ubam_list_name": "WGS_unmapped_bam",
  15
  16   "##_Comment3": "GATK Luanch Path",
  17   "#ConvertPairedFastQsToUnmappedBamWf.PairedFastQsToUnmappedBAM.gatk_path_override": "/share/FGI2017B/brew/bin/",
  18
  19   "##_Comment4": "Docker",
  20   "#ConvertPairedFastQsToUnmappedBamWf.gatk_docker_override": "(optional) String?",
  21
  22   "##_Comment5": "Disk Space",
  23   "#ConvertPairedFastQsToUnmappedBamWf.PairedFastQsToUnmappedBAM.disk_space_gb": "(optional) Int?",
  24
  25   "##_Comment6": "Memory",
  26   "#ConvertPairedFastQsToUnmappedBamWf.PairedFastQsToUnmappedBAM.machine_mem_gb": "(optional) Int?",
  27
  28   "##_Comment7": "Preemptibles",
  29   "#ConvertPairedFastQsToUnmappedBamWf.preemptible_attempts": "(optional) Int?"
  30 }