Add CLI v1-alpha

[ethho]

• Adds script scripts/20210615_partition_model.py that implements a minimum viable partitioning model.
• Basic argparse CLI that takes paths to
  • Configuration YAML file
  • Travel CSV file
  • Contacts CSV file

Usage

$ PYTHONPATH='.' poetry run python scripts/20210615_partition_model.py --help
usage: 20210615_partition_model.py [-h] [-v] [--config-fp CONFIG_FP] [--travel-fp TRAVEL_FP] [--contacts-fp CONTACTS_FP] [--census-counts-csv CENSUS_COUNTS_CSV]
                                   [--beta BETA] [--initial-ia INITIAL_IA] [--start-date START_DATE] [--end-date END_DATE]

optional arguments:
  -h, --help            show this help message and exit
  -v, --verbose
  --config-fp CONFIG_FP
                        path to YAML configuration file
  --travel-fp TRAVEL_FP
                        path to travel.csv file
  --contacts-fp CONTACTS_FP
                        path to contacts.csv file
  --census-counts-csv CENSUS_COUNTS_CSV
                        path to file containing populations of ZCTAs
  --beta BETA           global transmission parameter
  --initial-ia INITIAL_IA
                        initial size of the Ia compartment (low risk only)
  --start-date START_DATE
                        starting date for the simulation, in string format of pandas.date_range
  --end-date END_DATE   end date for the simulation, in string format of pandas.date_range