Integration/mapping to existing CDS templates

[aclayton555]

In HTAN, we have established an initial approach to mapping the HTAN data model to the latest CDS Sequencing and CDS Imaging templates. @aditigopalan has been critical to this process. Note that the HTAN approach was performed a bit out of necessity and rushed toward the end of HTAN phase 1.0. So while the HTAN way works, there's an opportunity to build on this for MC2 and take a bit more time to strategize on an optimal approach. What we then do in MC2 may inform how we proceed into HTAN phase 2.0.

Suggested that we start with an initial show & tell type meeting to cover what has been done in HTAN so far and plan out what we do for MC2. This effort is expected to be within the scope of work for https://github.com/mc2-center/data-models/issues/115

Initial meeting scheduled for July 25. Thanks Aditi!

[aditigopalan]

For reference, here is the mapping file we use for HTAN.

[aditigopalan]

Start with imaging templates, and sequencing

• [ ] Add required attributes to MC2 (Latest template here)
• [ ] Compare HTAN and CDS attribute names
• [ ] Modify mappings.yml to fit MC2 model

[aditigopalan]

CDS files on mc2-cds branch

[Bankso]

CDS imaging model integration is in progress here: https://github.com/mc2-center/data-models/tree/refactor-add-cds-imaging

Imaging attributes from CDS model have been integrated into a set of level 1 - 4 + channel schemas as our initial imaging data model (essentially recapitulates HTAN model at this point)

Additional attributes from CDS were integrated into the Biospecimen schema redesign and the unreleased Model and Individual schemas

[Bankso]

Next steps here:

• add all valid values to model and updating mappings.yml for imaging, model, and individual schemas
• add CDS sequencing attributes, valid values, value mappings and define sequencing schemas for levels 1 - 3/4
• update documentation to reflect new schemas and module folder refactor

[aclayton555]

Will be closed out with #115