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make necessary changes to id_prefixes for chemical entity hierarchy #1500

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merged 8 commits into from
Jul 26, 2024
Merged

make necessary changes to id_prefixes for chemical entity hierarchy #1500

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cce7edf
make necessary changes to id_prefixes for chemical entity hierarchy
sierra-moxon May 2, 2024
dbf0017
fix fooddb.compound
sierra-moxon May 10, 2024
e993ae2
remove failing example
sierra-moxon May 10, 2024
5e46e1c
fixing failing test
sierra-moxon May 10, 2024
e4494ae
merge master
sierra-moxon May 10, 2024
065e1aa
fixing conflicts
sierra-moxon Jul 26, 2024
24488ca
fixing conflicts
sierra-moxon Jul 26, 2024
3643138
fixing conflicts
sierra-moxon Jul 26, 2024
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201 changes: 96 additions & 105 deletions biolink-model.yaml
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2 changes: 1 addition & 1 deletion project/graphql/biolink_model.graphql
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Original file line number Diff line number Diff line change
Expand Up @@ -6678,6 +6678,7 @@ type SiRNA

type SmallMolecule
{
id: String!
iri: IriType
type: [String]
name: LabelType
Expand All @@ -6695,7 +6696,6 @@ type SmallMolecule
isToxic: Boolean
hasChemicalRole: [ChemicalRole]
isMetabolite: Boolean
id: String!
}

type Snv
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4 changes: 2 additions & 2 deletions project/jsonld/biolink_model.context.jsonld
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
{
"comments": {
"description": "Auto generated by LinkML jsonld context generator",
"generation_date": "2024-07-26T01:02:00",
"generation_date": "2024-07-25T18:08:32",
"source": "biolink_model.yaml"
},
"@context": {
Expand Down Expand Up @@ -347,8 +347,8 @@
"@prefix": true
},
"PFAM": "https://identifiers.org/pfam/",
"PHARMGKB.CHEMICAL": "https://www.pharmgkb.org/chemical/",
"PHARMGKB.DISEASE": "https://www.pharmgkb.org/disease/",
"PHARMGKB.DRUG": "https://www.pharmgkb.org/chemical/",
"PHARMGKB.GENE": "https://www.pharmgkb.org/gene/",
"PHARMGKB.PATHWAYS": "https://www.pharmgkb.org/pathway/",
"PHARMGKB.VARIANT": "https://www.pharmgkb.org/variant/",
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