From b529d4ac271c52b46c81bf01a3d57b43c7dcede0 Mon Sep 17 00:00:00 2001 From: raphaelgazzotti Date: Thu, 5 Mar 2026 21:47:20 +0100 Subject: [PATCH 1/2] UBERONParcellation removal --- schemas/atlas/parcellationEntity.schema.tpl.json | 10 +++++++--- .../non-atlas/customAnatomicalEntity.schema.tpl.json | 10 +++++++--- 2 files changed, 14 insertions(+), 6 deletions(-) diff --git a/schemas/atlas/parcellationEntity.schema.tpl.json b/schemas/atlas/parcellationEntity.schema.tpl.json index b871cb0a0..9ae2e3676 100644 --- a/schemas/atlas/parcellationEntity.schema.tpl.json +++ b/schemas/atlas/parcellationEntity.schema.tpl.json @@ -55,11 +55,15 @@ ] } }, - "relatedUBERONTerm":{ - "_instruction": "Add the related anatomical entity as defined by the UBERON ontology.", + "relatedAnatomicalEntity":{ + "_instruction": "Add the related anatomical entity.", "_linkedTypes": [ + "controlledTerms:MuscularStructure", + "controlledTerms:NervousSystemStructure", "controlledTerms:Organ", - "controlledTerms:UBERONParcellation" + "controlledTerms:SkeletalStructure", + "controlledTerms:TissueStructure", + "controlledTerms:VascularStructure" ] } } diff --git a/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json b/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json index 7f1c2a423..64f34b215 100644 --- a/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json +++ b/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json @@ -21,11 +21,15 @@ "type": "string", "_instruction": "Enter a descriptive name for this custom anatomical entity." }, - "relatedUBERONTerm":{ - "_instruction": "Add the related anatomical entity as defined by the UBERON ontology.", + "relatedAnatomicalEntity":{ + "_instruction": "Add the related anatomical entity.", "_linkedTypes": [ + "controlledTerms:MuscularStructure", + "controlledTerms:NervousSystemStructure", "controlledTerms:Organ", - "controlledTerms:UBERONParcellation" + "controlledTerms:SkeletalStructure", + "controlledTerms:TissueStructure", + "controlledTerms:VascularStructure" ] }, "relationAssessment": { From 26cb5e38adc12a68b2b3e3b772a1304b38c29070 Mon Sep 17 00:00:00 2001 From: raphaelgazzotti Date: Thu, 5 Mar 2026 22:34:27 +0100 Subject: [PATCH 2/2] Rename property relatedAnatomicalEntity to anatomicalEntity --- .../atlas/parcellationEntity.schema.tpl.json | 24 +++++++++---------- .../customAnatomicalEntity.schema.tpl.json | 22 ++++++++--------- 2 files changed, 23 insertions(+), 23 deletions(-) diff --git a/schemas/atlas/parcellationEntity.schema.tpl.json b/schemas/atlas/parcellationEntity.schema.tpl.json index 9ae2e3676..8cb7608cc 100644 --- a/schemas/atlas/parcellationEntity.schema.tpl.json +++ b/schemas/atlas/parcellationEntity.schema.tpl.json @@ -21,7 +21,18 @@ "items": { "type": "string" } - }, + }, + "anatomicalEntity":{ + "_instruction": "Add the related anatomical entity.", + "_linkedTypes": [ + "controlledTerms:MuscularStructure", + "controlledTerms:NervousSystemStructure", + "controlledTerms:Organ", + "controlledTerms:SkeletalStructure", + "controlledTerms:TissueStructure", + "controlledTerms:VascularStructure" + ] + }, "definition": { "type": "string", "_instruction": "Enter the definition for this parcellation entity." @@ -54,17 +65,6 @@ "iri" ] } - }, - "relatedAnatomicalEntity":{ - "_instruction": "Add the related anatomical entity.", - "_linkedTypes": [ - "controlledTerms:MuscularStructure", - "controlledTerms:NervousSystemStructure", - "controlledTerms:Organ", - "controlledTerms:SkeletalStructure", - "controlledTerms:TissueStructure", - "controlledTerms:VascularStructure" - ] } } } diff --git a/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json b/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json index 64f34b215..fa9e7e9dd 100644 --- a/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json +++ b/schemas/non-atlas/customAnatomicalEntity.schema.tpl.json @@ -8,6 +8,17 @@ "name" ], "properties": { + "anatomicalEntity":{ + "_instruction": "Add the related anatomical entity.", + "_linkedTypes": [ + "controlledTerms:MuscularStructure", + "controlledTerms:NervousSystemStructure", + "controlledTerms:Organ", + "controlledTerms:SkeletalStructure", + "controlledTerms:TissueStructure", + "controlledTerms:VascularStructure" + ] + }, "hasAnnotation": { "type": "array", "minItems": 1, @@ -20,17 +31,6 @@ "name": { "type": "string", "_instruction": "Enter a descriptive name for this custom anatomical entity." - }, - "relatedAnatomicalEntity":{ - "_instruction": "Add the related anatomical entity.", - "_linkedTypes": [ - "controlledTerms:MuscularStructure", - "controlledTerms:NervousSystemStructure", - "controlledTerms:Organ", - "controlledTerms:SkeletalStructure", - "controlledTerms:TissueStructure", - "controlledTerms:VascularStructure" - ] }, "relationAssessment": { "type": "array",