starting_graph: 'test_data/velvet_output/LastGraph'
num_iterations: 30000
output_file: 'test_data/output_gaml.fasta'
iter_log_file: 'test_data/iters.log'
t0: 0.0004
n_divisor: 150
postprocessing_break_threshold: 0.0001
finishing_iterations: 1000
postprocessing_break_iter_num: 2000
paired_reads: {
  filename1: 'test_data/miseq_R1.fastq'
  filename2: 'test_data/miseq_R2.fastq'
  mean_distance: 298.311
  std_distance: 47.4269
  use_as_advice: true
  insert_prob: 0.01
  subst_prob: 0.01
  del_prob: 0.01
  min_prob_start: -10
  min_prob_per_base: -0.7
  uncovered_penalty: -500
  uncovered_threshold: 50
  uncovered_start_ignore: 300
  lower_bound_advice_count: 5
}
