This repo contains python code for covalic scoring of activation and recovery times
To run this code, go to the covalic ART challenge: https://challenge.kitware.com/#challenge/5b44770756357d05219fa8e3
This code runs from a docker container here: https://hub.docker.com/r/ecgimaging/cei_activationrecoverytimes
To run this code in covalic, make sure the docker repository has a build with the recent changes. Note the repo and build tag name, eg, ecgimaging/cei_activationrecoverytimes:latest.
In the covalic phase, choose the 'Customize scoring behavior' options from the actions menu. Input the docker repo name in the 'Image identifier' field. You can leave the 'Container Arguments' as the default.
Next, choose 'Scoring metrics' from the action menu. Add a metric to match each metric name in the scoreCommon.py file.
A final note: It may be neccessary to make sure that the submissions do not need to match the ground truth files. Choose the 'Configure submission' option and uncheck the 'Require submission filenames to match ground truth filenames' option.
To run the code locally, Install docker and make sure that the docker container is up to date. Run the container with the call similar to the following:
docker run -v /path/to/data/folder:/mnt/girder_worker/data ecgimaging/cei_activationrecoverytimes:latest --groundtruth=/mnt/girder_worker/data/ground_truth --submission=/mnt/girder_worker/data/ground_truth