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Datastore-Local

CircleCI

Copyright (c) General Electric Company, 2017. All rights reserved.

Local storage implementation of a Rt 106 datastore. This is a simple datastore using a directory structure on the filesystem to manage data. This datastore is geared for small, simple deployments. It provides a simple mechanism to wrap or ingest pre-existing data into Rt 106. The rt106-datastore REST API is used to serve the data to applications and algorithms.

Local filesystem organization

rt106-datastore-local prescribes a folder structure for data to manage primary (source) data as well as derived data from algorithm executions.

  • Patients
    • Patient ID (or Patient Name)
      • Primary
        • Imaging
          • Study ID
            • Series ID
              • Image
              • Image
            • ...
          • ...
        • Tables (future)
        • Monitoring (future)
        • Records (future)
      • Results
        • Pipeline ID
          • Execution ID
            • Imaging
              • Study ID
                • Series ID
                  • Image
                  • Image
                • ...
              • ...
            • Tables (future)
            • Monitoring (future)
            • Records (future)
  • Slides
    • Slide
      • Region
        • Source
          • Channel
            • Image
        • Pipeline ID
          • Execution ID
            • Channel
              • Image
        • Pipeline ID
          • Execution ID
            • Channel
              • Image

ID's may be DICOM UIDs (Study Instance UID) or can be UUIDs.

Docker container

To build the docker container for the front-end:

$ docker build -t rt106/rt106-datastore-local:latest .

If you use HTTP proxies in your environment, you may need to build using

$ docker build -t rt106/rt106-datastore-local:latest  --build-arg http_proxy=$http_proxy --build-arg https_proxy=$https_proxy  --build-arg no_proxy=$no_proxy .

Example radiology data

A sample of the data from the Visible Human Project can be downloaded and arranged as a local datastore by passing the environment variable DOWNLOAD_RAD_DEMO_DATA='on' or DOWNLOAD_RAD_DEMO_DATA='force' to the rt106-datastore-local container on startup.

(DICOM files for Visible Human Project data are downloaded from https://mri.radiology.uiowa.edu/VHDicom.)