INCATools / INCATools/ontology-access-kit

expand value set command should allow for configurable materialized values

Open
#622 1 comment 2 reactions 0 assignees View on GitHub
Dominant language
Python
Stars
198
Forks
35
Avg merge
3d 4h
Merged PRs (30d)
1

Description

Current the tool assumes you want to refer to a materialized enum PV by its curie; in fact this may vary, others may want

* expanded URLs
* labels
- with or without space replacement to camelcase/uppercase etc
* ad-hoc schemes such as MIxS `combine harvester [AGRO:00000473]`
* others

We can't anticipate all forms but we can allow passing in of an fstring (I don't think this should be schema-driven), with save evaluation materializing as preferred

Contributor guide

Open the contributing guide

Research direction

Start with the implementation of the expand value set command and trace how materialized enum values are currently represented by CURIEs. Define how a caller supplies an f-string and how save-time evaluation materializes the preferred value; done should support configurable CURIE, URL, label, and ad-hoc formats.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
cli
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

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