dwhdai/physionet-2019

PhysioNet 2019 - LKS-CHART

PythonBSD-2-Clause

Development of a Sepsis Early Warning Indicator

To run code:

Install Docker (will need admin permission): https://hub.docker.com/editions/community/docker-ce-desktop-windows
Build docker image:

docker build -t physionet .

Create test directories: 1) Copy some of the training data into the a test input directory and 2) create an empty output directory. This is whapythont my test directories look like:

C:\Users\PouPromC\Projects\physionet-2019\test_data (abstract-submission -> origin)
λ ls
input_dir/  output_dir/
C:\Users\PouPromC\Projects\physionet-2019\test_data (abstract-submission -> origin)
λ ls input_dir\
p000001.psv
C:\Users\PouPromC\Projects\physionet-2019\test_data (abstract-submission -> origin)
λ ls output_dir\

Mount the test directories to the Docker countainer and launch the container.

docker run -v PATH_TO_INPUT_DIRECTORY\:/physionet2019/input_directory -v PATH_TO_OUTPUT_DIRECTORY:/physionet-2019/output_dir -it physionet bash

Run the driver.py code.

python driver.py input_directory output_dir