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ToTriplets method #28

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Merged
omaus merged 2 commits into from
Aug 25, 2025
Merged

ToTriplets method #28

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2bc30cc
Add method to return Ontology as triplets
omaus Aug 25, 2025
5fe2aa1
Add unit test for triplet returning method
omaus Aug 25, 2025
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23 changes: 22 additions & 1 deletion src/Ontology.NET/Ontology.fs
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Original file line number Diff line number Diff line change
Expand Up @@ -201,6 +201,20 @@ type Ontology() =

onto

/// <summary>
/// Returns the Ontology as a collection of Triplets.
/// </summary>
/// <returns>A collection of Triplets in the form of SourceTerm * Relation * TargetTerm.</returns>
member this.ToTriplets() =
FGraph.toSeq this
|> Seq.collect (
fun (nk1,nd1,nk2,nd2,es) ->
es
|> Seq.map (
fun e -> nd1, e, nd2
)
)


// basic functionality:

Expand Down Expand Up @@ -1306,4 +1320,11 @@ type Ontology() =
/// <returns>A sequence of term IDs representing all transitively is_a source-related terms and their xref-related terms that can be reached within the given depth.</returns>
/// <remarks>A source relation is an incoming relation. E.g. "Term A -> Term B", Term A is the source-related term to Term B. If "->" is an is_a relation, Term A is the subclass of Term B.</remarks>
static member getSubClassesWithDepthWithXrefsTransitively termID depth (onto : Ontology) =
onto.GetSubClassesWithDepthWithXrefsTransitively(termID, depth)
onto.GetSubClassesWithDepthWithXrefsTransitively(termID, depth)

/// <summary>
/// Returns the given Ontology as a collection of Triplets.
/// </summary>
/// <returns>A collection of Triplets in the form of SourceTerm * Relation * TargetTerm.</returns>
static member toTriplets (onto : Ontology) =
onto.ToTriplets()
33 changes: 33 additions & 0 deletions tests/Ontology.NET.Tests/Ontology.Tests.fs
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Expand Up @@ -358,4 +358,37 @@ module OntologyTests =
Expect.equal actual.Ontology expected.Ontology "ontology (i.e., ontology name) differs"
]

testList "ToTriplets" [
testCase "returns correct triplets" <| fun _ ->
let actual = ReferenceObjects.testOnto1.ToTriplets() |> Seq.toList
let expected = [
({ Accession = "test:01"
Name = "Frosch"
RefUri = "test" }, Xref, { Accession = "test:02"
Name = "Kröte"
RefUri = "test" });
({ Accession = "test:01"
Name = "Frosch"
RefUri = "test" }, IsA, { Accession = "test:04"
Name = "Tier"
RefUri = "test" });
({ Accession = "test:02"
Name = "Kröte"
RefUri = "test" }, IsA, { Accession = "test:04"
Name = "Tier"
RefUri = "test" });
({ Accession = "test:03"
Name = "Quakendes Geschöpf"
RefUri = "test" }, Xref, { Accession = "test:02"
Name = "Kröte"
RefUri = "test" });
({ Accession = "test:03"
Name = "Quakendes Geschöpf"
RefUri = "test" }, IsA, { Accession = "test:04"
Name = "Tier"
RefUri = "test" })
]
Expect.sequenceEqual actual expected "Triplets differ"
]

]
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