Add the orphanet subset to the Slurp file

[sabrinatoro]

when reviewing the slurp/ordo.tsv, it would be helpful to know whether the orphanet term is in the "grouping disease", "disorder", or "subtype of disease" subset in orphanet. Please add a column in the slurp/ordo.tsv for the orphanet subset. Thank you!

[joeflack4]

That sounds helpful! I will be happy to help out.

Thoughts for myself about implementation:

• Have a goal that runs at end of subclass synchronization pipeline for additional modifications
• That goal can run a separate goal that makes the modification to add these to ordo
  • easiest way is a Python script, but maybe there's another way

[matentzn]

This is already done and is exactly what our https://github.com/monarch-initiative/mondo-ingest/pull/510 is about..

[joeflack4]

I'm not the user of these outputs, so I can't say how useful it is to have this subset info in reports /ordo-subsets.robot.template.tsv vs in slurp/ordo.tsv as @sabrinatoro is asking. But they are different files each with different information, and have different numbers of rows.

reports /ordo-subsets.robot.template.tsv (9348 rows):	mondo_id	subset	ordo_id	mondo_label	ordo_label
ID	A oboInOwl:inSubset	>A oboInOwl:source

slurp/ordo.tsv (13 rows):	mondo_id	mondo_label	xref	xref_source	original_label	definition	parents
ID	LABEL	A oboInOwl:hasDbXref	>A oboInOwl:source SPLIT="		A IAO:0000115	SC %

[matentzn]

@joeflack4 you are right, thanks for correcting me. #510 is sync, the request is for migrate and serves multiple purposes:

1. ORDO sourced diseases immediately have the correct subset (no delay waiting for sync)
2. The editor knows "aha, this is a group of disorders, maybe I should obsolete it rather than add it".

So forget what I said, and thanks for the correction!

[joeflack4]

Addressed by:

• 531