options.py

import sys, argparse, yaml
from attrdict import AttrDict


def get_user_args():
  """ Return --settings specified by user in CLI. """
  return [item.replace('--', '') for item in sys.argv if item[:2] == '--']


def parse_setting():
  """ Parse out setting from sys.argv.
      Looks for --setting val or --setting=val. 
  """
  argparser = argparse.ArgumentParser()
  argparser.add_argument(f'--setting', type=str)
  args, unknown = argparser.parse_known_args()
  return args.setting


def parse_args():
  """ Control flow.
      Here:
      1. Read setting from sys.argv
      2. Load experiment-specific default settings in experiment folder.
      3. Use default yaml args to populate argparser.
        Read in CLI user --arguments with argparser and update options.
      In runexpwb.py:
      4. Log to wandb.config
      5. Use args = AttrDict(wandb.config) in code
  """
  setting_folds = {
    'bag': 'exps/bag/',
    'tfbind8': 'exps/tfbind8/',
    'tfbind10': 'exps/tfbind10/',
    'qm9str': 'exps/qm9str/',
    'sehstr': 'exps/sehstr/',
    'gfp': 'exps/gfp/',
    'utr': 'exps/utr/',
    'rna': 'exps/rna/'
  }

  # 1. Read setting from sys.argv
  setting = parse_setting()

  config_yaml = setting_folds[setting] + 'settings.yaml'
  print(f'Reading hyperparameters from {config_yaml} ...')
  with open(config_yaml) as f:
    default_args = yaml.load(f, Loader=yaml.FullLoader)

  # 2. Populate argparser and read user CLI args
  argparser = argparse.ArgumentParser()
  for arg, val in default_args.items():
    argparser.add_argument(f'--{arg}', default=val, type=type(val))
  parsed_args = AttrDict(vars(argparser.parse_args()))
  return parsed_args


if __name__ == '__main__':
  args = parse_args()
  print(args)
  print(sys.argv)
  import code; code.interact(local=dict(globals(), **locals()))