text: paired = True
  procs = 1
  alt_dir = False
  initial_qc = True
  all_qc = 'summary'
  walkaway = True
  front_trim = 6
  mismatch = 1
  R1_bases_ls = ['TCC', 'TCT']
  R2_bases_ls = ['TCC', 'TCT']
  non_genomic = 1
  q_min = 30
  q_percent = 90
  end_score = 30
  window = 10
  rm_transit = True
  compress = False
  