v2.0.0 MC4R Pipeline

Users can now map a valid ERKER dataset in .csv format to Phenopackets by calling the following command:

usage: pipeline [-h] [-d | -t] [-p] [-v] data_path [out_dir_name]

positional arguments:
  data_path       The path to the data
  out_dir_name    The name of the output directory

options:
  -h, --help      show this help message and exit
  -d, --debug     Enable debug logging
  -t, --trace     Enable trace logging
  -p, --publish   Write phenopackets to out instead of test
  -v, --validate  Validate the created phenopackets