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inflammation-analysis.py
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inflammation-analysis.py
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#!/usr/bin/env python3
"""Software for managing and analysing patients' inflammation data in our imaginary hospital."""
import argparse
import os
from inflammation import models, views
from inflammation.compute_data import analyse_data
def main(args):
"""The MVC Controller of the patient inflammation data system.
The Controller is responsible for:
- selecting the necessary models and views for the current task
- passing data between models and views
"""
in_files = args.infiles
if not isinstance(in_files, list):
in_files = [args.infiles]
if args.full_data_analysis:
analyse_data(os.path.dirname(in_files[0]))
return
for filename in in_files:
inflammation_data = models.load_csv(filename)
view_data = {
"average": models.daily_mean(inflammation_data),
"max": models.daily_max(inflammation_data),
"min": models.daily_min(inflammation_data),
}
views.visualize(view_data)
if __name__ == "__main__":
parser = argparse.ArgumentParser(
description="A basic patient inflammation data management system"
)
parser.add_argument(
"infiles",
nargs="+",
help="Input CSV(s) containing inflammation series for each patient",
)
parser.add_argument(
"--full-data-analysis", action="store_true", dest="full_data_analysis"
)
args = parser.parse_args()
main(args)