WebAPI/Atlas Release v2.4.0 Planning

[anthonysena]

Hi,

We are planning the v2.4.0 release of WebAPI/Atlas for May 1, 2018 and this thread is a call for contributions for features to include in the release.

In order to submit an idea for a feature, please respond to this thread with the following information by 3/26/2018 so that we can anticipate any potential challenges for incorporating the features:

• A short description of the feature
• The organization or developers that are involved in the implementation
• Any anticipated impact to current WebAPI/Atlas functionality (if applicable)
• After you have responded to this thread, please create a new issue so that the specific feature can be tracked in the V2.4.0 milestone.

Contributions are due April 15, 2018 for inclusion in the release, to be provided as a pull request. If you have work that is planned but cannot make it into this release timeline, please do post them up to raise community awareness and collaboration.

Thank you!

[pavgra]

Hey @anthonysena,

It would be good, if a couple of already existing PRs, bringing integration with ExecutionEngine and possibility to execute PLE & PLP, were included into upcoming release.

https://github.com/OHDSI/WebAPI/issues/330

[alondhe]

Hi all,

So I don't think this will be possible for April 15 (also -- a due date of Tax Day in the US? C'mon!), but to raise community awareness and collaboration:

Metadata and Annotations

1. The Metadata and annotations features will allow data custodians and researchers to share knowledge about a data source, a concept, a temporal event, a patient, and other constructs. This will empower us to retain knowledge learned from experience with the data and prevent others from falling into traps.
2. So far, I am the main contributor, but @fdefalco and @anthonysena expressed interest.
3. New GUIs will be added, but it's not totally clear yet; perhaps a new metadata management page, warning/info boxes in the concept explorer, and a diagnostics tab in the cohort designer.
4. https://github.com/OHDSI/WebAPI/issues/349

Thanks, Ajit

[anthonysena]

Per #361, aim to finalize the work done around Treatment Pathways for inclusion in Atlas/WebAPI.

[chrisknoll]

We're proposing a new set of Heracles reports: Healthcare Utilization Reports. #362 will coordinate the efforts on phase 1 of this project.

[gklebanov]

The Odysseus team is planning the following bugs, improvements and features for 2.4 (subject to a possible change)

• Improved cohort characterization and feature extraction (as a part of the Cost and Utilization Interim Solution #362 )
• (Pending) ARACHNE Execution Engine support (PLE and PLP) https://github.com/OHDSI/WebAPI/pull/351 (will add barebone support, will finish in 2.5) https://github.com/OHDSI/Atlas/pull/598
• Add JCR support to analysis results (scope TBD) https://github.com/OHDSI/WebAPI/issues/348 (will probably go into 2.5)
• (Pending) Show which concepts are descendants in included concepts tab https://github.com/OHDSI/Atlas/issues/31
• (DONE) User Interface for Daimon / Source Configuration https://github.com/OHDSI/Atlas/issues/57
• REST endpoint for configured and supported WebAPI features https://github.com/OHDSI/WebAPI/issues/303
• Add UUID to Cohort Definitions https://github.com/OHDSI/Atlas/issues/496 (will coordinate with @jduke99) (will probably go into 2.5)
• (DONE) Authentication Token Sent To External Domain https://github.com/OHDSI/Atlas/issues/578
• (DONE) Available cohort reports not updating with job completion https://github.com/OHDSI/Atlas/issues/570
• Conceptset page inside of Cohort definition not refreshing on add of new concept from vocabulary https://github.com/OHDSI/Atlas/issues/530
• (DONE) Measurement Reports are missing plots https://github.com/OHDSI/Atlas/issues/489
• (Was closed before) Discrepancy between createCovariateSettings arguments in Atlas Estimation Tab and in FeatureExtraction 2.0.0 https://github.com/OHDSI/Atlas/issues/490
• (DONE) Capture author for all entity types https://github.com/OHDSI/Atlas/issues/565
• Physical dates on Patient profile, as a configurable option to use index relative dates or physical dates https://github.com/OHDSI/WebAPI/issues/363
• Fix feature extraction where censor period is being used https://github.com/OHDSI/WebAPI/issues/364
• (DONE) Add import from cohort/concept set https://github.com/OHDSI/Atlas/issues/531 (PATRICK - HIGH PRIORITY)
• (Pending) Encrypt system account passwords in database (and in transit) https://github.com/OHDSI/WebAPI/issues/381

[MaximMoinat]

At The Hyve, we are working on a new endpoint in the Incidence Rate (IR) Analysis Service: ir/<analysis_id>/reports/<source_key>. This returns all IR results for that source and will be used for a new overview of incidence rates in one IR study. The Atlas integration is still in development.

[anthonysena]

Thanks @MaximMoinat! Could you create an issue for this enhancement for this work so we can track it as part of the release? Also, I think this may need further discussion as I believe the fact that not all IR results are returned in a single call was by design. That said, there may be ways to further secure things, etc that we can discuss in that separate thread.