AlphaFold2/docker/run_docker.py阅读理解

我想阅读源码看一下alphafold2的实现细节，但是看完这个py文件里面并没有实现细节。只有对传入参数的设置，但读完代码也做一下记录。

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1. 检查特定的参数：数据库文件夹、fasta文件、模板

运行main函数

if __name__ == '__main__':
  flags.mark_flags_as_required([
      'data_dir',
      'fasta_paths',
      'max_template_date',
  ])
  app.run(main)

2. main()函数

设置数据库路径（8个）、模板路径、输出文件路径

if len(argv) > 1:
    raise app.UsageError('Too many command-line arguments.')

  # You can individually override the following paths if you have placed the
  # data in locations other than the FLAGS.data_dir.

  # Path to the Uniref90 database for use by JackHMMER.
  uniref90_database_path = os.path.join(
      FLAGS.data_dir, 'uniref90', 'uniref90.fasta')

  # Path to the Uniprot database for use by JackHMMER.
  uniprot_database_path = os.path.join(
      FLAGS.data_dir, 'uniprot', 'uniprot.fasta')

  # Path to the MGnify database for use by JackHMMER.
  mgnify_database_path = os.path.join(
      FLAGS.data_dir, 'mgnify', 'mgy_clusters_2018_12.fa')

  # Path to the BFD database for use by HHblits.
  bfd_database_path = os.path.join(
      FLAGS.data_dir, 'bfd',
      'bfd_metaclust_clu_complete_id30_c90_final_seq.sorted_opt')

  # Path to the Small BFD database for use by JackHMMER.
  small_bfd_database_path = os.path.join(
      FLAGS.