Parameter File Template

{
  "file_type":2,
  "input_file_nums":3,
  "input_file_list":[
    {
      "round_id":5,
      "round_name":"Round5",
      "file_path":"/path/to/fastq/5R.fastq"
    },
    {
      "round_id":6,
      "round_name":"Round6",
      "file_path":"/path/to/fastq/6R.fastq"
    }, 
    {
      "round_id":7,
      "round_name":"Round7",
      "file_path":"/path/to/fastq/7R.fastq"
    }
  ],
  "experiment_dbfile":"/path/to/fastq/filename.sqlite3",
  "analysis_output_path":"/path/to/output/",  
  "analysis_dbfile":"/path/to/output/filename.sqlite3",

  
  "forward_primer":"TAATACGACTCACTATAGGGAGCAGGAGAGAGGTCAGATG",
  "reverse_primer":"CCTATGCGTGCTAGTGTGA",
  "add_forward_primer":"GGGAGCAGGAGAGAGGTCAGATG",
  "add_reverse_primer":"CCTATGCGTGCTAGTGTGA",
  "sequence_maximum_length":35,
  "sequence_minimum_length":25,


  "wide_length":10,
  "nucleotide_weight":0.5,
  "cosine_distance":0.001,
  "missing_ratio":0.00001,


  "calcAKFandAKE":false,
  "calcBMFandBME":false,
  "calcBKFandBKE":false,
  "add_binding":false,
  "binding_file_path":"/path/to/binding.txt"
}