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include-dcc / inc-portal-model

Portal model Whistler Project to ETL include data into FHIR
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Missing `Data Type` for some BRI-DSR files #11

Closed lopierra closed 2 years ago

lopierra commented 2 years ago

Data Type is missing for annoFuse_filter.tsv files in BRI-DSR. Per Meen's Khor manifest, the Data Type should be Annotated Gene Fusion

jthib077 commented 2 years ago

I think there may be missing the type attribute for these specific files. Perhaps the Annotated Gene Fusion wasn't a part of the enumeration in the codesystem?

Codesystem: https://includedcc.org/fhir/code-systems/data_types"](https://includedcc.org/fhir/code-systems/data_types

Issue Reference: https://include-api-fhir-service-qa.includedcc.org/DocumentReference?identifier=BRI-DSR.09729910-2420-4ce3-990a-ad8f202b0139.annoFuse_filter.tsv

image

torstees commented 2 years ago

Added new code to the CodeSystem and pushed to QA. https://include-api-fhir-service-qa.includedcc.org/CodeSystem?url=https://includedcc.org/fhir/code-systems/data_types

Added the reference in the Harmony file and the data type now appears correctly on my local dev machine. Should be fine on reload