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