The included tools are intended for interfacing with the Ambra Health platform for imaging (radiology) studies, utilizing the Ambra SDK which calls the Ambra API. Requires the user to have the appropriate permissions on Ambra to perform the given actions.
The ambra_download command can be used to download data from Ambra. Based on user input it will download all studies in a given location or a specific study or studies.
For quick review, QC_studies.py will print the number of unique studies and subjects found for a given bucket.
Expected environment variables:
AMBRA_USERNAME
required, user's associated e-mail for Ambra account
AMBRA_PASSWORD
required, user's associated password for Ambra account
For QC_studies.py only:
AMBRA_PHI_NAMESPACE
required, the PHI namespace ID for the given Ambra bucket/project
download_type
required, specifies the type of download. Either 'all' (all studies on the instance), 'mrn' (all studies associated with a given patient), or 'accession_number' (one study based on an accession number).
patient_mrn
required if download_type is 'mrn', the patient MRN to download studies for.
accession_number
required if download_type is 'accession_number', the accession number of the study to download.
ambra_phi_namespace
required if download_type is 'all', the Ambra PHI Namepsace defining the source bucket.
python3 ambra_download.py --download_type mrn --patient_mrn 012345
python3 ambra_download.py --download_type all --ambra_phi_namespace '01234a56b-1234-0aaa-ab01-0ab12c34d567'
Ambra-SDK documentation: https://dicomgrid.github.io/sdk-python/index.html
Ambra API documentation: https://uat.dicomgrid.com/api/v3/api.html
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