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cfmm2tar

Download a tarballed DICOM dataset from the CFMM DICOM server

Docker image

  1. Install Docker

  2. Clone this repo and build the image:

git clone https://github.com/khanlab/cfmm2tar
cd cfmm2tar
docker build -t cfmm2tar .
  1. Run the containerized cfmm2tar:
OUTPUT_DIR=/path/to/dir
mkdir ${OUTPUT_DIR}
docker run -i -t --rm --volume ${OUTPUT_DIR}:/data cfmm2tar

This will display help on using cfmm2tar

Search and download a specific dataset, e.g.

docker run -i -t --rm --volume ${OUTPUT_DIR}:/data cfmm2tar -p 'Everling^Marmoset' -d '20180803' /data

(You will be asked for your UWO username and password, and will only be able to find and download datasets to which you have read permissions).