closing several old term request issues from Jagadish

[turbomam]

• close Jagadishcs term requests for NMDC: batch 1/2 2020-10 (env-medium and local-env) #1030
• close Jagadishcs term requests for NMDC: batch 2/2, 2021-04 #1075
• close Request for new terms #1191
• close Request for new EnvO terms #1193
• close Request for a new set of EnvO terms for alignment with JGI GOLD vocabulary #1200
• close Consolidate ROBOT templates from #1030 and #1075 #1089

---

• check Combined NMDC ENVO_template_robot_sheet
• check NMDC-01_EnvO_template_robot_sheet
• check NMDC-03_EnvO_template_robot_sheet
• check NMDC_02_ENVO_template_robot_sheet

[turbomam]

Checking against https://github.com/EnvironmentOntology/envo/blob/master/src/envo/envo-edit.owl

[pbuttigieg]

Many thanks @turbomam

[turbomam]

I don't see the following from NMDC-03_EnvO_template_robot_sheet

ontology ID	label
ENVO:03600090	alcohol fermentation pit
ENVO:03600091	clay fermentation pit
ENVO:03600092	artificial pond
ENVO:03600093	artificial satellite

I do see

• http://purl.obolibrary.org/obo/ENVO_03600039 (fermentation pit), but that doesn't have any subclasses.
• http://purl.obolibrary.org/obo/ENVO_00000377 (artificial lake)

[turbomam]

http://purl.obolibrary.org/obo/ENVO_03600039 (fermentation pit) does say

AnnotationAssertion(Annotation(http://www.geneontology.org/formats/oboInOwl#hasDbXref https://en.wikipedia.org/wiki/Baijiu) Annotation(http://www.geneontology.org/formats/oboInOwl#hasDbXref https://www.frontiersin.org/articles/10.3389/fmicb.2020.01223/full) http://purl.obolibrary.org/obo/IAO_0000115 http://purl.obolibrary.org/obo/ENVO_03600039 "A pit which has been constructed for use in fermentation processes that will yield alcoholic spirits."@en)

So maybe we can say that another 'alcohol fermentation pit' term doesn't need to be created, but I would like to add it as a (narrow?) synonym.

[turbomam]

ontology ID	label	parent class	definition	definition cross reference	comment	comment cross reference	editors note	exact synonym	broad synonym	narrow synonym	related synonym	in subset	cross reference	subclass axiom	creation date	created by
ID	AL rdfs:label@en	SC %	AL IAO:0000115@en	>AI oboInOwl:hasDbXref SPLIT=|	AL rdfs:comment@en	>AI oboInOwl:hasDbXref SPLIT=|	AL IAO:0000116@en	AL oboInOwl:hasExactSynonym@en SPLIT=|	AL oboInOwl:hasBroadSynonym@en SPLIT=|	AL oboInOwl:hasNarrowSynonym@en SPLIT=|	AL oboInOwl:hasRelatedSynonym@en SPLIT=|	A oboInOwl:inSubset SPLIT=|	AI oboInOwl:hasDbXref SPLIT=|	SC % SPLIT=|	AT oboInOwl:creation_date^^xsd:dateTime	AI oboInOwl:created_by SPLIT=|
ENVO:03600092	artificial pond	pond	A pond which has been constructed by humans or their technologies.		Definition from 2021-08-05 call with But­ti­gieg, Duncan and Miller		add axioms to reason this under human construction								2021-08-09T15:00:00.000Z	https://orcid.org/0000-0001-9076-6066|https://orcid.org/0000-0002-4366-3088|https://orcid.org/0000-0001-9625-1899
ENVO:03600093	artificial satellite	human construction	A human construction that has intentionally been placed into orbit.	https://en.wikipedia.org/wiki/Satellite	Not to be confused with a natural satellite like the earth's moon (https://en.wikipedia.org/wiki/Natural_satellite)										2021-08-09T15:00:00.000Z	https://orcid.org/0000-0001-9076-6066|https://orcid.org/0000-0002-4366-3088|https://orcid.org/0000-0001-9625-1899

[pbuttigieg]

Please create a PR with your suggested additions and we'll close these lists. Thanks for detecting the omissions @turbomam

[pbuttigieg]

On fermentation pit - I'd generalise that class' definition and add a subclass for alcoholic fermentation pits