if __name__ == "__main__": parser = argparse.ArgumentParser(description="re_annotation") parser.add_argument('--bunch', help='Which set is going to compare') args = parser.parse_args() bunch = args.bunch input_dir, output_dir = Utils.init_paths() annotators = Utils.annators_name(input_dir) variable_dict, variable_hash_dict, section_dict= Entities.get_annotators_entities(bunch, annotators, input_dir, t_number=False) merged_variables, owner_file = Merge.merge_entities(variable_dict) merged_variables = Entities.sorted_entities(merged_variables) merged_sections, _ = Merge.merge_entities(section_dict) merged_variables_hash = Merge.merge_hash(variable_hash_dict) ctakes_dir = input_dir.replace("input", "ctakes_output") ctakes_variables, ctakes_variables_hash, ctakes_sections = Entities.get_ctakes_entities(bunch, ctakes_dir, t_number=False) merged_variables, merged_variables_hash, merged_sections = Merge.merge_ctakes_annotators(merged_variables, merged_variables_hash, merged_sections, ctakes_variables, ctakes_variables_hash,