bde9abbb18dcdf19b4c4d2a02ccd323f90ebd5d4,deeptrio/make_examples.py,,make_examples_runner,#Any#,1567

Before Change

  with OutputsWriter(options) as writer:
    running_timer = timer.TimerStart()
    for region in regions:
      candidates, examples, gvcfs = region_processor.process(region)
      n_candidates += len(candidates)
      n_examples += len(examples)
      n_regions += 1

After Change

  last_reported = 0
  running_timer = timer.TimerStart()

  writers_dict = {}

  for region in regions:
    candidates_dict, examples_dict, gvcfs_dict = region_processor.process(
        region)
    for sample in candidates_dict:
      candidates = candidates_dict[sample]
      examples = examples_dict[sample]
      gvcfs = gvcfs_dict[sample]

      if sample not in writers_dict:
        // Only use suffix in calling mode
        suffix = None if in_training_mode(options) else sample
        writers_dict[sample] = OutputsWriter(options, suffix=suffix)
      writer = writers_dict[sample]

      n_candidates += len(candidates)
      n_examples += len(examples)

Instances