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Update cystInLocation DOS-DP pattern template
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This commit intends to
1. Update the logical definition of cystInLocation.
2. Update ORCIDs.
3. Fix some yaml syntax errors.
If applied, this commit will fix #878.
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rays22 committed Sep 9, 2022
1 parent e41a5ad commit 7c445f9
Showing 1 changed file with 20 additions and 8 deletions.
28 changes: 20 additions & 8 deletions src/patterns/dosdp-dev/cystInLocation.yaml
Original file line number Diff line number Diff line change
@@ -1,17 +1,25 @@
pattern_name: cystInLocation
pattern_iri: http://purl.obolibrary.org/obo/upheno/patterns-dev/cystInLocation.yaml
description: "The presence of a cyst in an anatomical entity. For example, HP_0010604 'Cyst of the eyelid'."
description: "The presence of a cyst in an anatomical entity. For example,
HP_0010604 'Cyst of the eyelid'."

contributors:
- https://orcid.org/0000-0001-5208-3432
- https://orcid.org/0000-0002-3528-5267
- https://orcid.org/0000-0001-5208-3432 # Nicole Vasilevsky
- https://orcid.org/0000-0002-3528-5267 # Sofia Robb
- https://orcid.org/0000-0001-8314-2140 # Ray Stefancsik
- https://orcid.org/0000-0003-4606-0597 # Susan Bello
- https://orcid.org/0000-0002-6490-7723 # Anna V. Anagnostopoulos
- https://orcid.org/0000-0002-4142-7153 # Sabrina Toro
- https://orcid.org/0000-0001-7941-2961 # Leigh Carmody
- https://orcid.org/0000-0002-0736-9199 # Peter N Robinson

classes:
cystic: PATO:0001673
abnormal: PATO:0000460
anatomical entity: UBERON:0001062

relations:
inheres_in: RO:0000052
characteristic_of_part_of: RO:0002314
has_modifier: RO:0002573
has_part: BFO:0000051

Expand All @@ -21,14 +29,18 @@ vars:
name:
text: "%s cyst"
vars:
- anatomical_entity
- anatomical_entity

def:
text: "The presence of a cyst in the %s."
vars:
- anatomical_entity
- anatomical_entity

equivalentTo:
text: "'has_part' some ('cystic' and ('inheres_in' some %s) and ('has_modifier' some 'abnormal'))"
text: "'has_part' some (
'cystic' and
('characteristic_of_part_of' some %s) and
('has_modifier' some 'abnormal')
)"
vars:
- anatomical_entity
- anatomical_entity

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