diff --git a/tests/input/obo-compliance/alt_id/alt_id.expected.json b/tests/input/obo-compliance/alt_id/alt_id.expected.json index 34cae3811..c18347e5f 100644 --- a/tests/input/obo-compliance/alt_id/alt_id.expected.json +++ b/tests/input/obo-compliance/alt_id/alt_id.expected.json @@ -37,6 +37,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/alt_id/alt_id.expected.ofn b/tests/input/obo-compliance/alt_id/alt_id.expected.ofn index 4a84914fd..aa7753a4d 100644 --- a/tests/input/obo-compliance/alt_id/alt_id.expected.ofn +++ b/tests/input/obo-compliance/alt_id/alt_id.expected.ofn @@ -28,6 +28,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/alt_id/alt_id.expected.owl b/tests/input/obo-compliance/alt_id/alt_id.expected.owl index cbc010d1f..44799cf8b 100644 --- a/tests/input/obo-compliance/alt_id/alt_id.expected.owl +++ b/tests/input/obo-compliance/alt_id/alt_id.expected.owl @@ -55,7 +55,9 @@ - + + id + @@ -90,5 +92,5 @@ - + diff --git a/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.json b/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.json index 583c4a47c..cd321b17c 100644 --- a/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.json +++ b/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.json @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.ofn b/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.ofn index 27329352d..6a26e487a 100644 --- a/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.ofn +++ b/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.owl b/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.owl index e4628c8da..0b29df8a4 100644 --- a/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.owl +++ b/tests/input/obo-compliance/broad_synonym/broad_synonym.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -74,5 +76,5 @@ - + diff --git a/tests/input/obo-compliance/comment/comment.expected.json b/tests/input/obo-compliance/comment/comment.expected.json index ca2f869e9..3fa2d5c77 100644 --- a/tests/input/obo-compliance/comment/comment.expected.json +++ b/tests/input/obo-compliance/comment/comment.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/comment/comment.expected.ofn b/tests/input/obo-compliance/comment/comment.expected.ofn index 6cf21a979..6b1835c77 100644 --- a/tests/input/obo-compliance/comment/comment.expected.ofn +++ b/tests/input/obo-compliance/comment/comment.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty(rdfs:comment)) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/comment/comment.expected.owl b/tests/input/obo-compliance/comment/comment.expected.owl index 7d9affc5f..daa648421 100644 --- a/tests/input/obo-compliance/comment/comment.expected.owl +++ b/tests/input/obo-compliance/comment/comment.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.json b/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.json index a9b80f3b8..6909396c8 100644 --- a/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.json +++ b/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.json @@ -13,7 +13,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", - "val" : "X:3" + "val" : "http://purl.obolibrary.org/obo/X_3" } ], "deprecated" : true } @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.ofn b/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.ofn index 5d1ec795c..287197e97 100644 --- a/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.ofn +++ b/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ @@ -35,7 +39,7 @@ AnnotationAssertion(rdfs:label () -AnnotationAssertion(Annotation( "PMID:123470") "X:3") +AnnotationAssertion(Annotation( "PMID:123470") ) AnnotationAssertion( "X:1") AnnotationAssertion(owl:deprecated "true"^^xsd:boolean) diff --git a/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.owl b/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.owl index ecbd72aad..1faff6644 100644 --- a/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.owl +++ b/tests/input/obo-compliance/consider-annotated/consider-annotated.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -72,19 +74,19 @@ - X:3 + X:1 true - X:3 + PMID:123470 - + diff --git a/tests/input/obo-compliance/consider/consider.expected.json b/tests/input/obo-compliance/consider/consider.expected.json index 5014074c9..94be20d24 100644 --- a/tests/input/obo-compliance/consider/consider.expected.json +++ b/tests/input/obo-compliance/consider/consider.expected.json @@ -13,7 +13,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#consider", - "val" : "X:3" + "val" : "http://purl.obolibrary.org/obo/X_3" } ], "deprecated" : true } @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/consider/consider.expected.ofn b/tests/input/obo-compliance/consider/consider.expected.ofn index 3466507e7..02553efd5 100644 --- a/tests/input/obo-compliance/consider/consider.expected.ofn +++ b/tests/input/obo-compliance/consider/consider.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ @@ -34,7 +38,7 @@ AnnotationAssertion(rdfs:label () -AnnotationAssertion( "X:3") +AnnotationAssertion( ) AnnotationAssertion( "X:1") AnnotationAssertion(owl:deprecated "true"^^xsd:boolean) diff --git a/tests/input/obo-compliance/consider/consider.expected.owl b/tests/input/obo-compliance/consider/consider.expected.owl index f3b2bf167..6c1a20ba9 100644 --- a/tests/input/obo-compliance/consider/consider.expected.owl +++ b/tests/input/obo-compliance/consider/consider.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -66,7 +68,7 @@ - X:3 + X:1 true @@ -74,5 +76,5 @@ - + diff --git a/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.json b/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.json index 25a16a525..a3b22b00d 100644 --- a/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.json +++ b/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.json @@ -16,10 +16,18 @@ "val" : "ORCID:1234" } ] } + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "lbl" : "created by", + "type" : "PROPERTY" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.ofn b/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.ofn index 79ae07c61..1317134f6 100644 --- a/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.ofn +++ b/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.ofn @@ -18,10 +18,18 @@ Declaration(AnnotationProperty( (created by) + +AnnotationAssertion(rdfs:label "created by") + # Annotation Property: (has_obo_format_version) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.owl b/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.owl index 1c8442454..6d9f828fa 100644 --- a/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.owl +++ b/tests/input/obo-compliance/created_by-annotated/created_by-annotated.expected.owl @@ -26,7 +26,9 @@ - + + created by + @@ -40,7 +42,9 @@ - + + id + @@ -77,5 +81,5 @@ - + diff --git a/tests/input/obo-compliance/created_by/created_by.expected.json b/tests/input/obo-compliance/created_by/created_by.expected.json index f9ae82d9e..c7b1ef1a1 100644 --- a/tests/input/obo-compliance/created_by/created_by.expected.json +++ b/tests/input/obo-compliance/created_by/created_by.expected.json @@ -16,10 +16,18 @@ "val" : "username" } ] } + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "lbl" : "created by", + "type" : "PROPERTY" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/created_by/created_by.expected.ofn b/tests/input/obo-compliance/created_by/created_by.expected.ofn index c26052ddc..972379783 100644 --- a/tests/input/obo-compliance/created_by/created_by.expected.ofn +++ b/tests/input/obo-compliance/created_by/created_by.expected.ofn @@ -17,10 +17,18 @@ Declaration(AnnotationProperty( # Annotation Properties ############################ +# Annotation Property: (created by) + +AnnotationAssertion(rdfs:label "created by") + # Annotation Property: (has_obo_format_version) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/created_by/created_by.expected.owl b/tests/input/obo-compliance/created_by/created_by.expected.owl index 485c567ce..86f718562 100644 --- a/tests/input/obo-compliance/created_by/created_by.expected.owl +++ b/tests/input/obo-compliance/created_by/created_by.expected.owl @@ -26,7 +26,9 @@ - + + created by + @@ -40,7 +42,9 @@ - + + id + @@ -65,5 +69,5 @@ - + diff --git a/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.json b/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.json index ce605ed16..289bbae0f 100644 --- a/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.json +++ b/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.json @@ -16,10 +16,18 @@ "val" : "2023-11-20" } ] } + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "lbl" : "creation date", + "type" : "PROPERTY" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.ofn b/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.ofn index 3c050896b..1180a3e96 100644 --- a/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.ofn +++ b/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.ofn @@ -18,10 +18,18 @@ Declaration(AnnotationProperty( (creation date) + +AnnotationAssertion(rdfs:label "creation date") + # Annotation Property: (has_obo_format_version) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.owl b/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.owl index a057580b8..4d901118e 100644 --- a/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.owl +++ b/tests/input/obo-compliance/creation_date-annotated/creation_date-annotated.expected.owl @@ -26,7 +26,9 @@ - + + creation date + @@ -40,7 +42,9 @@ - + + id + @@ -77,5 +81,5 @@ - + diff --git a/tests/input/obo-compliance/creation_date/creation_date.expected.json b/tests/input/obo-compliance/creation_date/creation_date.expected.json index 901b6a52c..94ded15fb 100644 --- a/tests/input/obo-compliance/creation_date/creation_date.expected.json +++ b/tests/input/obo-compliance/creation_date/creation_date.expected.json @@ -16,10 +16,18 @@ "val" : "2023-11-20" } ] } + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "lbl" : "creation date", + "type" : "PROPERTY" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/creation_date/creation_date.expected.ofn b/tests/input/obo-compliance/creation_date/creation_date.expected.ofn index 3a24248e4..dd08cefcf 100644 --- a/tests/input/obo-compliance/creation_date/creation_date.expected.ofn +++ b/tests/input/obo-compliance/creation_date/creation_date.expected.ofn @@ -17,10 +17,18 @@ Declaration(AnnotationProperty( # Annotation Properties ############################ +# Annotation Property: (creation date) + +AnnotationAssertion(rdfs:label "creation date") + # Annotation Property: (has_obo_format_version) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/creation_date/creation_date.expected.owl b/tests/input/obo-compliance/creation_date/creation_date.expected.owl index 17224700a..de833ca95 100644 --- a/tests/input/obo-compliance/creation_date/creation_date.expected.owl +++ b/tests/input/obo-compliance/creation_date/creation_date.expected.owl @@ -26,7 +26,9 @@ - + + creation date + @@ -40,7 +42,9 @@ - + + id + @@ -65,5 +69,5 @@ - + diff --git a/tests/input/obo-compliance/default-namespace/default-namespace.expected.json b/tests/input/obo-compliance/default-namespace/default-namespace.expected.json index 40b157ee1..0f349caa0 100644 --- a/tests/input/obo-compliance/default-namespace/default-namespace.expected.json +++ b/tests/input/obo-compliance/default-namespace/default-namespace.expected.json @@ -27,6 +27,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "lbl" : "has_obo_namespace", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/default-namespace/default-namespace.expected.ofn b/tests/input/obo-compliance/default-namespace/default-namespace.expected.ofn index 1c67771ca..657ad8293 100644 --- a/tests/input/obo-compliance/default-namespace/default-namespace.expected.ofn +++ b/tests/input/obo-compliance/default-namespace/default-namespace.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion(rdfs:label "has_obo_namespace") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/default-namespace/default-namespace.expected.owl b/tests/input/obo-compliance/default-namespace/default-namespace.expected.owl index c3e8a58aa..f4b9c32f5 100644 --- a/tests/input/obo-compliance/default-namespace/default-namespace.expected.owl +++ b/tests/input/obo-compliance/default-namespace/default-namespace.expected.owl @@ -49,7 +49,9 @@ - + + id + @@ -74,5 +76,5 @@ - + diff --git a/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.json b/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.json index ec9b07292..6fc832418 100644 --- a/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.json +++ b/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.json @@ -28,6 +28,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.ofn b/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.ofn index b086391c5..80f24e09f 100644 --- a/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.ofn +++ b/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.ofn @@ -30,6 +30,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.owl b/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.owl index 1156e3a40..743181c0a 100644 --- a/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.owl +++ b/tests/input/obo-compliance/definition-annotated/definition-annotated.expected.owl @@ -51,7 +51,9 @@ - + + id + @@ -82,5 +84,5 @@ - + diff --git a/tests/input/obo-compliance/definition-xref/definition-xref.expected.json b/tests/input/obo-compliance/definition-xref/definition-xref.expected.json index 382592ef8..13cf02646 100644 --- a/tests/input/obo-compliance/definition-xref/definition-xref.expected.json +++ b/tests/input/obo-compliance/definition-xref/definition-xref.expected.json @@ -28,6 +28,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/definition-xref/definition-xref.expected.ofn b/tests/input/obo-compliance/definition-xref/definition-xref.expected.ofn index fe77e1b3f..e7b9ec3f3 100644 --- a/tests/input/obo-compliance/definition-xref/definition-xref.expected.ofn +++ b/tests/input/obo-compliance/definition-xref/definition-xref.expected.ofn @@ -30,6 +30,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/definition-xref/definition-xref.expected.owl b/tests/input/obo-compliance/definition-xref/definition-xref.expected.owl index ccd6f514f..ff0a1dedf 100644 --- a/tests/input/obo-compliance/definition-xref/definition-xref.expected.owl +++ b/tests/input/obo-compliance/definition-xref/definition-xref.expected.owl @@ -51,7 +51,9 @@ - + + id + @@ -82,5 +84,5 @@ - + diff --git a/tests/input/obo-compliance/definition/definition.expected.json b/tests/input/obo-compliance/definition/definition.expected.json index b9368b94f..86804c29e 100644 --- a/tests/input/obo-compliance/definition/definition.expected.json +++ b/tests/input/obo-compliance/definition/definition.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/definition/definition.expected.ofn b/tests/input/obo-compliance/definition/definition.expected.ofn index 802e027af..e266dfaa3 100644 --- a/tests/input/obo-compliance/definition/definition.expected.ofn +++ b/tests/input/obo-compliance/definition/definition.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "def AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/definition/definition.expected.owl b/tests/input/obo-compliance/definition/definition.expected.owl index d3f17fa70..7f10682b4 100644 --- a/tests/input/obo-compliance/definition/definition.expected.owl +++ b/tests/input/obo-compliance/definition/definition.expected.owl @@ -43,7 +43,9 @@ - + + id + @@ -68,5 +70,5 @@ - + diff --git a/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.json b/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.json index b83fa5e69..351523dc2 100644 --- a/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.json +++ b/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.ofn b/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.ofn index 37e0c2a83..10f216ccd 100644 --- a/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.ofn +++ b/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.owl b/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.owl index 72ce9f88e..2494d5f5b 100644 --- a/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.owl +++ b/tests/input/obo-compliance/disjoint_from-annotated/disjoint_from-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -77,5 +79,5 @@ - + diff --git a/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.json b/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.json index e43c759d6..8bbeebf5c 100644 --- a/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.json +++ b/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.ofn b/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.ofn index d6d48eb15..5b2d8ee6a 100644 --- a/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.ofn +++ b/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.owl b/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.owl index 7b592fad0..5195f46b1 100644 --- a/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.owl +++ b/tests/input/obo-compliance/disjoint_from/disjoint_from.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.json b/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.json index ed60131be..2c718e582 100644 --- a/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.json +++ b/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "equivalentNodesSets" : [ { "representativeNodeId" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.ofn b/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.ofn index 35dc5b4aa..7c9c835b4 100644 --- a/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.ofn +++ b/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.owl b/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.owl index da2bace78..a8cbf7738 100644 --- a/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.owl +++ b/tests/input/obo-compliance/equivalent_to-annotated/equivalent_to-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -77,5 +79,5 @@ - + diff --git a/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.json b/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.json index dba36982c..8511f0532 100644 --- a/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.json +++ b/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "equivalentNodesSets" : [ { "representativeNodeId" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.ofn b/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.ofn index 6e295f9e7..081359825 100644 --- a/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.ofn +++ b/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.owl b/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.owl index 2be7fc32b..98e537ef1 100644 --- a/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.owl +++ b/tests/input/obo-compliance/equivalent_to/equivalent_to.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.json b/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.json index 4e376188a..1051de4a1 100644 --- a/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.json +++ b/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.json @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.ofn b/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.ofn index d3a2585d0..196526785 100644 --- a/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.ofn +++ b/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.owl b/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.owl index 06db9269b..c9266ce9f 100644 --- a/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.owl +++ b/tests/input/obo-compliance/exact_synonym/exact_synonym.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -74,5 +76,5 @@ - + diff --git a/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.json b/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.json index e84568dba..77b5fafdf 100644 --- a/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.json +++ b/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "logicalDefinitionAxioms" : [ { "definedClassId" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.ofn b/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.ofn index ba83cc8d9..302f40ce4 100644 --- a/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.ofn +++ b/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.ofn @@ -24,6 +24,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + diff --git a/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.owl b/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.owl index a31dd7307..3d19bcf39 100644 --- a/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.owl +++ b/tests/input/obo-compliance/intersection_of-genus-differentia-annotated/intersection_of-genus-differentia-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -109,5 +111,5 @@ - + diff --git a/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.json b/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.json index 29cd1633b..854a4352b 100644 --- a/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.json +++ b/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "logicalDefinitionAxioms" : [ { "definedClassId" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.ofn b/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.ofn index b7639054d..fab535fda 100644 --- a/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.ofn +++ b/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.ofn @@ -23,6 +23,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + diff --git a/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.owl b/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.owl index f773f1b54..6bdb3860a 100644 --- a/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.owl +++ b/tests/input/obo-compliance/intersection_of-genus-differentia/intersection_of-genus-differentia.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -98,5 +100,5 @@ - + diff --git a/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.json b/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.json index 95fbc33da..060db61d2 100644 --- a/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.json +++ b/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "logicalDefinitionAxioms" : [ { "definedClassId" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.ofn b/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.ofn index c18bb987a..893e8c155 100644 --- a/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.ofn +++ b/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.owl b/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.owl index 272e9107b..201bc7152 100644 --- a/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.owl +++ b/tests/input/obo-compliance/intersection_of-genus-pair/intersection_of-genus-pair.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -78,5 +80,5 @@ - + diff --git a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.json b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.json index 005e4c047..5c9c70532 100644 --- a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.json +++ b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/X_1", @@ -18,7 +22,7 @@ "obj" : "http://purl.obolibrary.org/obo/Y_1", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#dcterms:source", + "pred" : "http://purl.org/dc/terms/source", "val" : "PMID:123456" } ] } diff --git a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.obo b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.obo index 15d5d7c8b..d2ae126d5 100644 --- a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.obo +++ b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.obo @@ -1,4 +1,5 @@ format-version: 1.2 +idspace: dcterms http://purl.org/dc/terms/ ontology: is_a-annotated-prefix [Term] diff --git a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.ofn b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.ofn index 4332c1f82..e3e3c1f51 100644 --- a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.ofn +++ b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.ofn @@ -4,6 +4,7 @@ Prefix(rdf:=) Prefix(xml:=) Prefix(xsd:=) Prefix(rdfs:=) +Prefix(dcterms:=) Ontology( @@ -11,9 +12,9 @@ Annotation( "1 Declaration(Class()) Declaration(Class()) +Declaration(AnnotationProperty(dcterms:source)) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) ############################ # Annotation Properties ############################ @@ -22,6 +23,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ @@ -31,7 +36,7 @@ AnnotationAssertion(rdfs:label () AnnotationAssertion( "X:1") -SubClassOf(Annotation( "PMID:123456") ) +SubClassOf(Annotation(dcterms:source "PMID:123456") ) ) \ No newline at end of file diff --git a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.owl b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.owl index f9b973151..bc7e491a9 100644 --- a/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.owl +++ b/tests/input/obo-compliance/is_a-annotated-prefix/is_a-annotated-prefix.expected.owl @@ -6,7 +6,7 @@ xmlns:xml="http://www.w3.org/XML/1998/namespace" xmlns:xsd="http://www.w3.org/2001/XMLSchema#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" - xmlns:dcterms="http://www.geneontology.org/formats/oboInOwl#dcterms:" + xmlns:dcterms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> 1.4 @@ -25,6 +25,12 @@ + + + + + + @@ -35,13 +41,9 @@ - - - - - - - + + id + @@ -78,5 +80,5 @@ - + diff --git a/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.json b/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.json index 2ce05dc0a..7be01fa4c 100644 --- a/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.json +++ b/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.ofn b/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.ofn index ba8134170..7c33a6b73 100644 --- a/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.ofn +++ b/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.owl b/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.owl index cad565cf1..d233b7db6 100644 --- a/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.owl +++ b/tests/input/obo-compliance/is_a-annotated/is_a-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -77,5 +79,5 @@ - + diff --git a/tests/input/obo-compliance/is_a/is_a.expected.json b/tests/input/obo-compliance/is_a/is_a.expected.json index a31491906..cdc4c2ccf 100644 --- a/tests/input/obo-compliance/is_a/is_a.expected.json +++ b/tests/input/obo-compliance/is_a/is_a.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/is_a/is_a.expected.ofn b/tests/input/obo-compliance/is_a/is_a.expected.ofn index d7cc4ac5a..6267d3bee 100644 --- a/tests/input/obo-compliance/is_a/is_a.expected.ofn +++ b/tests/input/obo-compliance/is_a/is_a.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/is_a/is_a.expected.owl b/tests/input/obo-compliance/is_a/is_a.expected.owl index 43a4793e3..3d383bd2e 100644 --- a/tests/input/obo-compliance/is_a/is_a.expected.owl +++ b/tests/input/obo-compliance/is_a/is_a.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.json b/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.json index b4b6ab549..b1cbbf04f 100644 --- a/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.json +++ b/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.json @@ -24,6 +24,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.ofn b/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.ofn index b222ceed1..878569f68 100644 --- a/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.ofn +++ b/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "ant AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.owl b/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.owl index b5f14799a..26d92a900 100644 --- a/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.owl +++ b/tests/input/obo-compliance/is_anti_symmetric/is_anti_symmetric.expected.owl @@ -43,7 +43,9 @@ - + + id + @@ -68,5 +70,5 @@ - + diff --git a/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.json b/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.json index 78ef8353d..926d3813f 100644 --- a/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.json +++ b/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.json @@ -20,6 +20,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.ofn b/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.ofn index 0735aa934..66dccbf0a 100644 --- a/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.ofn +++ b/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.owl b/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.owl index f11de3e70..009292627 100644 --- a/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.owl +++ b/tests/input/obo-compliance/is_cyclic/is_cyclic.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/is_functional/is_functional.expected.json b/tests/input/obo-compliance/is_functional/is_functional.expected.json index e9ed0eb41..aa1138812 100644 --- a/tests/input/obo-compliance/is_functional/is_functional.expected.json +++ b/tests/input/obo-compliance/is_functional/is_functional.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/is_functional/is_functional.expected.ofn b/tests/input/obo-compliance/is_functional/is_functional.expected.ofn index 7bb203dc0..4569d98d5 100644 --- a/tests/input/obo-compliance/is_functional/is_functional.expected.ofn +++ b/tests/input/obo-compliance/is_functional/is_functional.expected.ofn @@ -20,6 +20,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/is_functional/is_functional.expected.owl b/tests/input/obo-compliance/is_functional/is_functional.expected.owl index db92a894f..276ed3aa2 100644 --- a/tests/input/obo-compliance/is_functional/is_functional.expected.owl +++ b/tests/input/obo-compliance/is_functional/is_functional.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -59,5 +61,5 @@ - + diff --git a/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.json b/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.json index 364c3b6d0..d8134ec12 100644 --- a/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.json +++ b/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.ofn b/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.ofn index 6fe90ef76..e0faf7da4 100644 --- a/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.ofn +++ b/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.ofn @@ -20,6 +20,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.owl b/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.owl index 246d07639..4497a15d7 100644 --- a/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.owl +++ b/tests/input/obo-compliance/is_inverse_functional/is_inverse_functional.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -59,5 +61,5 @@ - + diff --git a/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.json b/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.json index e06163d42..2493ee4cc 100644 --- a/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.json +++ b/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.ofn b/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.ofn index eb0394fc4..371544daf 100644 --- a/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.ofn +++ b/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.ofn @@ -20,6 +20,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.owl b/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.owl index 55a59cbd3..2b822e869 100644 --- a/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.owl +++ b/tests/input/obo-compliance/is_symmetric/is_symmetric.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -59,5 +61,5 @@ - + diff --git a/tests/input/obo-compliance/is_transitive/is_transitive.expected.json b/tests/input/obo-compliance/is_transitive/is_transitive.expected.json index 066d8f3a1..dcc2a4403 100644 --- a/tests/input/obo-compliance/is_transitive/is_transitive.expected.json +++ b/tests/input/obo-compliance/is_transitive/is_transitive.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/is_transitive/is_transitive.expected.ofn b/tests/input/obo-compliance/is_transitive/is_transitive.expected.ofn index c65052829..e9503912a 100644 --- a/tests/input/obo-compliance/is_transitive/is_transitive.expected.ofn +++ b/tests/input/obo-compliance/is_transitive/is_transitive.expected.ofn @@ -20,6 +20,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/is_transitive/is_transitive.expected.owl b/tests/input/obo-compliance/is_transitive/is_transitive.expected.owl index 632f3720c..c14a500fe 100644 --- a/tests/input/obo-compliance/is_transitive/is_transitive.expected.owl +++ b/tests/input/obo-compliance/is_transitive/is_transitive.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -59,5 +61,5 @@ - + diff --git a/tests/input/obo-compliance/name-annotated/name-annotated.expected.json b/tests/input/obo-compliance/name-annotated/name-annotated.expected.json index bbe9ce60c..d83a05349 100644 --- a/tests/input/obo-compliance/name-annotated/name-annotated.expected.json +++ b/tests/input/obo-compliance/name-annotated/name-annotated.expected.json @@ -15,6 +15,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/name-annotated/name-annotated.expected.ofn b/tests/input/obo-compliance/name-annotated/name-annotated.expected.ofn index 359a92cc4..ef72d743f 100644 --- a/tests/input/obo-compliance/name-annotated/name-annotated.expected.ofn +++ b/tests/input/obo-compliance/name-annotated/name-annotated.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty(rdfs:label)) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/name-annotated/name-annotated.expected.owl b/tests/input/obo-compliance/name-annotated/name-annotated.expected.owl index 6ffcd12b3..706786df2 100644 --- a/tests/input/obo-compliance/name-annotated/name-annotated.expected.owl +++ b/tests/input/obo-compliance/name-annotated/name-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -77,5 +79,5 @@ - + diff --git a/tests/input/obo-compliance/name/name.expected.json b/tests/input/obo-compliance/name/name.expected.json index 75591dea2..3b2f66d12 100644 --- a/tests/input/obo-compliance/name/name.expected.json +++ b/tests/input/obo-compliance/name/name.expected.json @@ -15,6 +15,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/name/name.expected.ofn b/tests/input/obo-compliance/name/name.expected.ofn index ed770b768..522c67361 100644 --- a/tests/input/obo-compliance/name/name.expected.ofn +++ b/tests/input/obo-compliance/name/name.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty(rdfs:label)) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/name/name.expected.owl b/tests/input/obo-compliance/name/name.expected.owl index 40431d5a1..9ba1b10ee 100644 --- a/tests/input/obo-compliance/name/name.expected.owl +++ b/tests/input/obo-compliance/name/name.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/namespace/namespace.expected.json b/tests/input/obo-compliance/namespace/namespace.expected.json index e1dc1f5eb..0e42907a8 100644 --- a/tests/input/obo-compliance/namespace/namespace.expected.json +++ b/tests/input/obo-compliance/namespace/namespace.expected.json @@ -24,6 +24,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "lbl" : "has_obo_namespace", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/namespace/namespace.expected.ofn b/tests/input/obo-compliance/namespace/namespace.expected.ofn index 36ef2e7b4..f5cc1b358 100644 --- a/tests/input/obo-compliance/namespace/namespace.expected.ofn +++ b/tests/input/obo-compliance/namespace/namespace.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "has_obo_namespace") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/namespace/namespace.expected.owl b/tests/input/obo-compliance/namespace/namespace.expected.owl index 28f969f9a..fc687ff02 100644 --- a/tests/input/obo-compliance/namespace/namespace.expected.owl +++ b/tests/input/obo-compliance/namespace/namespace.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -67,5 +69,5 @@ - + diff --git a/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.json b/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.json index 7ca3350da..17beb05f0 100644 --- a/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.json +++ b/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.json @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.ofn b/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.ofn index 2913919e6..e6fadf0f7 100644 --- a/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.ofn +++ b/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.owl b/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.owl index eeb5f1b42..cd7b199ba 100644 --- a/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.owl +++ b/tests/input/obo-compliance/narrow_synonym/narrow_synonym.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -74,5 +76,5 @@ - + diff --git a/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.json b/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.json index 54e66a19b..fd843e70d 100644 --- a/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.json +++ b/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.ofn b/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.ofn index 61f499c2a..d367cc4ab 100644 --- a/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.ofn +++ b/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty(owl:deprecated)) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.owl b/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.owl index 8f5c5da6d..0c52b98b5 100644 --- a/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.owl +++ b/tests/input/obo-compliance/obsolete-annotated/obsolete-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -77,5 +79,5 @@ - + diff --git a/tests/input/obo-compliance/obsolete/obsolete.expected.json b/tests/input/obo-compliance/obsolete/obsolete.expected.json index cfdd6730f..26848b549 100644 --- a/tests/input/obo-compliance/obsolete/obsolete.expected.json +++ b/tests/input/obo-compliance/obsolete/obsolete.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/obsolete/obsolete.expected.ofn b/tests/input/obo-compliance/obsolete/obsolete.expected.ofn index 677d883be..528b383e2 100644 --- a/tests/input/obo-compliance/obsolete/obsolete.expected.ofn +++ b/tests/input/obo-compliance/obsolete/obsolete.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty(owl:deprecated)) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/obsolete/obsolete.expected.owl b/tests/input/obo-compliance/obsolete/obsolete.expected.owl index c0bb0698c..f13f4e369 100644 --- a/tests/input/obo-compliance/obsolete/obsolete.expected.owl +++ b/tests/input/obo-compliance/obsolete/obsolete.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/owl-axioms-ObjectInverseOf/owl-axioms-ObjectInverseOf.expected.owl b/tests/input/obo-compliance/owl-axioms-ObjectInverseOf/owl-axioms-ObjectInverseOf.expected.owl index f09fa58f9..74c88380b 100644 --- a/tests/input/obo-compliance/owl-axioms-ObjectInverseOf/owl-axioms-ObjectInverseOf.expected.owl +++ b/tests/input/obo-compliance/owl-axioms-ObjectInverseOf/owl-axioms-ObjectInverseOf.expected.owl @@ -62,5 +62,5 @@ - + diff --git a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.json b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.json index 9e8413253..f09db0009 100644 --- a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.json +++ b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.json @@ -13,13 +13,21 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "1" + "val" : "Y:1" } ] } + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "lbl" : "created by", + "type" : "PROPERTY" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.obo b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.obo index 4587f6698..ef0771c57 100644 --- a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.obo +++ b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.obo @@ -1,7 +1,8 @@ format-version: 1.2 +idspace: Y http://example.org/Y/ ontology: prefixes-created_by [Term] id: X:1 -created_by: 1 +created_by: Y:1 diff --git a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.ofn b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.ofn index 4b3109275..8507ee578 100644 --- a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.ofn +++ b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.ofn @@ -1,4 +1,5 @@ Prefix(:=) +Prefix(Y:=) Prefix(owl:=) Prefix(rdf:=) Prefix(xml:=) @@ -17,10 +18,18 @@ Declaration(AnnotationProperty( # Annotation Properties ############################ +# Annotation Property: (created by) + +AnnotationAssertion(rdfs:label "created by") + # Annotation Property: (has_obo_format_version) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ @@ -29,7 +38,7 @@ AnnotationAssertion(rdfs:label () -AnnotationAssertion( "1") +AnnotationAssertion( "Y:1") AnnotationAssertion( "X:1") diff --git a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.owl b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.owl index 6790736e0..71447fa26 100644 --- a/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.owl +++ b/tests/input/obo-compliance/prefixes-created_by/prefixes-created_by.expected.owl @@ -1,6 +1,7 @@ - + + created by + @@ -40,7 +43,9 @@ - + + id + @@ -58,12 +63,12 @@ - 1 + Y:1 X:1 - + diff --git a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.json b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.json index ef01af3d8..4c2b31352 100644 --- a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.json +++ b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.obo b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.obo index b37d27fda..d39ed4408 100644 --- a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.obo +++ b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.obo @@ -1,4 +1,5 @@ format-version: 1.2 +idspace: Y http://example.org/Y/ ontology: prefixes-xref [Term] diff --git a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.ofn b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.ofn index e36f897b2..6b94309ef 100644 --- a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.ofn +++ b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.ofn @@ -1,4 +1,5 @@ Prefix(:=) +Prefix(Y:=) Prefix(owl:=) Prefix(rdf:=) Prefix(xml:=) @@ -25,6 +26,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.owl b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.owl index f1b974dfb..281316f57 100644 --- a/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.owl +++ b/tests/input/obo-compliance/prefixes-xref/prefixes-xref.expected.owl @@ -1,6 +1,7 @@ - + + id + @@ -67,5 +70,5 @@ - + diff --git a/tests/input/obo-compliance/prefixes/prefixes.expected.json b/tests/input/obo-compliance/prefixes/prefixes.expected.json index 8b2c3a6c1..518255c36 100644 --- a/tests/input/obo-compliance/prefixes/prefixes.expected.json +++ b/tests/input/obo-compliance/prefixes/prefixes.expected.json @@ -11,9 +11,13 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { - "sub" : "http://purl.obolibrary.org/obo/X_1", + "sub" : "http://example.org/X/1", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/Y_1" } ] diff --git a/tests/input/obo-compliance/prefixes/prefixes.expected.obo b/tests/input/obo-compliance/prefixes/prefixes.expected.obo index 32b340307..7c4eae006 100644 --- a/tests/input/obo-compliance/prefixes/prefixes.expected.obo +++ b/tests/input/obo-compliance/prefixes/prefixes.expected.obo @@ -1,4 +1,5 @@ format-version: 1.2 +idspace: X http://example.org/X/ ontology: prefixes [Term] diff --git a/tests/input/obo-compliance/prefixes/prefixes.expected.ofn b/tests/input/obo-compliance/prefixes/prefixes.expected.ofn index d5f9e77f0..9cfb34306 100644 --- a/tests/input/obo-compliance/prefixes/prefixes.expected.ofn +++ b/tests/input/obo-compliance/prefixes/prefixes.expected.ofn @@ -1,4 +1,5 @@ Prefix(:=) +Prefix(X:=) Prefix(owl:=) Prefix(rdf:=) Prefix(xml:=) @@ -9,7 +10,7 @@ Prefix(rdfs:=) Ontology( Annotation( "1.4") -Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -21,16 +22,20 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Classes ############################ -# Class: () +# Class: () -AnnotationAssertion( "X:1") -SubClassOf( ) +AnnotationAssertion( "X:1") +SubClassOf( ) ) \ No newline at end of file diff --git a/tests/input/obo-compliance/prefixes/prefixes.expected.owl b/tests/input/obo-compliance/prefixes/prefixes.expected.owl index 3cc9fd1de..2bb1e6435 100644 --- a/tests/input/obo-compliance/prefixes/prefixes.expected.owl +++ b/tests/input/obo-compliance/prefixes/prefixes.expected.owl @@ -1,6 +1,7 @@ - + + id + @@ -49,9 +52,9 @@ - + - + X:1 @@ -65,5 +68,5 @@ - + diff --git a/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.json b/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.json index 4f0f16e82..408950ad9 100644 --- a/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.json +++ b/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.json @@ -29,6 +29,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.ofn b/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.ofn index fb4cbeaaa..f7fd5363f 100644 --- a/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.ofn +++ b/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.owl b/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.owl index d649d6a95..cbce64bc9 100644 --- a/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.owl +++ b/tests/input/obo-compliance/property_value-anyURI/property_value-anyURI.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -75,5 +77,5 @@ - + diff --git a/tests/input/obo-compliance/property_value-float/property_value-float.expected.json b/tests/input/obo-compliance/property_value-float/property_value-float.expected.json index 12f4a28e6..17615d59f 100644 --- a/tests/input/obo-compliance/property_value-float/property_value-float.expected.json +++ b/tests/input/obo-compliance/property_value-float/property_value-float.expected.json @@ -29,6 +29,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-float/property_value-float.expected.ofn b/tests/input/obo-compliance/property_value-float/property_value-float.expected.ofn index f7b7ab76f..31380d8ab 100644 --- a/tests/input/obo-compliance/property_value-float/property_value-float.expected.ofn +++ b/tests/input/obo-compliance/property_value-float/property_value-float.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/property_value-float/property_value-float.expected.owl b/tests/input/obo-compliance/property_value-float/property_value-float.expected.owl index 1f7f2f70b..399d9a91e 100644 --- a/tests/input/obo-compliance/property_value-float/property_value-float.expected.owl +++ b/tests/input/obo-compliance/property_value-float/property_value-float.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -75,5 +77,5 @@ - + diff --git a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.json b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.json index ff50ad46b..11d79c936 100644 --- a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.json +++ b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.json @@ -36,6 +36,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.obo b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.obo index dd0356de4..00920e4cc 100644 --- a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.obo +++ b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.obo @@ -3,7 +3,6 @@ ontology: property_value-id-tag [Term] id: X:1 -property_value: id "X:1" xsd:string [Typedef] id: R:1 diff --git a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.ofn b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.ofn index 1de53f36d..60eacb4e0 100644 --- a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.ofn +++ b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.ofn @@ -34,6 +34,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.owl b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.owl index 91ad95577..4df2ce7d8 100644 --- a/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.owl +++ b/tests/input/obo-compliance/property_value-id-tag/property_value-id-tag.expected.owl @@ -60,7 +60,9 @@ - + + id + @@ -91,5 +93,5 @@ - + diff --git a/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.json b/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.json index 70b6571cc..56d5613bd 100644 --- a/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.json +++ b/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.json @@ -14,6 +14,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.ofn b/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.ofn index 28393d04b..f9f66e1a3 100644 --- a/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.ofn +++ b/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.ofn @@ -24,6 +24,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.owl b/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.owl index eef5c86ce..f176bba99 100644 --- a/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.owl +++ b/tests/input/obo-compliance/property_value-object-annotated/property_value-object-annotated.expected.owl @@ -35,7 +35,9 @@ - + + id + @@ -127,5 +129,5 @@ - + diff --git a/tests/input/obo-compliance/property_value-object/property_value-object.expected.json b/tests/input/obo-compliance/property_value-object/property_value-object.expected.json index 7ba125b70..c26395f60 100644 --- a/tests/input/obo-compliance/property_value-object/property_value-object.expected.json +++ b/tests/input/obo-compliance/property_value-object/property_value-object.expected.json @@ -29,6 +29,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-object/property_value-object.expected.ofn b/tests/input/obo-compliance/property_value-object/property_value-object.expected.ofn index 15e3d7c83..6bacde507 100644 --- a/tests/input/obo-compliance/property_value-object/property_value-object.expected.ofn +++ b/tests/input/obo-compliance/property_value-object/property_value-object.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/property_value-object/property_value-object.expected.owl b/tests/input/obo-compliance/property_value-object/property_value-object.expected.owl index cc4702e2f..427f86949 100644 --- a/tests/input/obo-compliance/property_value-object/property_value-object.expected.owl +++ b/tests/input/obo-compliance/property_value-object/property_value-object.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -75,5 +77,5 @@ - + diff --git a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.json b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.json index 32d984f6f..8e395388b 100644 --- a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.json +++ b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.json @@ -12,12 +12,20 @@ "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/skos_exactMatch", + "pred" : "http://www.w3.org/2004/02/skos/core#exactMatch", "val" : "http://purl.obolibrary.org/obo/Y_1" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/skos_exactMatch", + "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", + "lbl" : "has_obo_format_version", + "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" + }, { + "id" : "http://www.w3.org/2004/02/skos/core#exactMatch", "type" : "PROPERTY", "meta" : { "basicPropertyValues" : [ { @@ -25,10 +33,6 @@ "val" : "true" } ] } - }, { - "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", - "lbl" : "has_obo_format_version", - "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.obo b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.obo index 7ef9b7aa7..64dafca19 100644 --- a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.obo +++ b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.obo @@ -1,4 +1,5 @@ format-version: 1.2 +idspace: skos http://www.w3.org/2004/02/skos/core# ontology: property_value-skos-object [Term] diff --git a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.ofn b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.ofn index 98262f131..b3d86570d 100644 --- a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.ofn +++ b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.ofn @@ -4,29 +4,34 @@ Prefix(rdf:=) Prefix(xml:=) Prefix(xsd:=) Prefix(rdfs:=) +Prefix(skos:=) Ontology( Annotation( "1.4") Declaration(Class()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) +Declaration(AnnotationProperty(skos:exactMatch)) ############################ # Annotation Properties ############################ -# Annotation Property: () - -AnnotationAssertion( "skos:exactMatch") -AnnotationAssertion( "true"^^xsd:boolean) - # Annotation Property: (has_obo_format_version) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + +# Annotation Property: skos:exactMatch (skos:exactMatch) + +AnnotationAssertion( skos:exactMatch "skos:exactMatch") +AnnotationAssertion( skos:exactMatch "true"^^xsd:boolean) + ############################ @@ -35,8 +40,8 @@ AnnotationAssertion(rdfs:label () -AnnotationAssertion( ) AnnotationAssertion( "X:1") +AnnotationAssertion(skos:exactMatch ) ) \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.owl b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.owl index c4295a4a3..e157f95d9 100644 --- a/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.owl +++ b/tests/input/obo-compliance/property_value-skos-object/property_value-skos-object.expected.owl @@ -1,12 +1,12 @@ 1.4 @@ -25,15 +25,6 @@ - - - - skos:exactMatch - true - - - - @@ -44,7 +35,9 @@ - + + id + @@ -54,6 +47,15 @@ + + + + skos:exactMatch + true + + + + - X:1 + - + diff --git a/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.json b/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.json index 66762dedc..86fb797de 100644 --- a/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.json +++ b/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.json @@ -29,6 +29,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.ofn b/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.ofn index 5554b941b..c1fdad206 100644 --- a/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.ofn +++ b/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.ofn @@ -28,6 +28,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.owl b/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.owl index dc89339bb..5eb764261 100644 --- a/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.owl +++ b/tests/input/obo-compliance/property_value-string-annotated/property_value-string-annotated.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -87,5 +89,5 @@ - + diff --git a/tests/input/obo-compliance/property_value-string/property_value-string.expected.json b/tests/input/obo-compliance/property_value-string/property_value-string.expected.json index a1194824f..c014ca541 100644 --- a/tests/input/obo-compliance/property_value-string/property_value-string.expected.json +++ b/tests/input/obo-compliance/property_value-string/property_value-string.expected.json @@ -29,6 +29,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/property_value-string/property_value-string.expected.ofn b/tests/input/obo-compliance/property_value-string/property_value-string.expected.ofn index ff8fc9e4d..07fcab030 100644 --- a/tests/input/obo-compliance/property_value-string/property_value-string.expected.ofn +++ b/tests/input/obo-compliance/property_value-string/property_value-string.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/property_value-string/property_value-string.expected.owl b/tests/input/obo-compliance/property_value-string/property_value-string.expected.owl index d0fad45bc..7f362ccac 100644 --- a/tests/input/obo-compliance/property_value-string/property_value-string.expected.owl +++ b/tests/input/obo-compliance/property_value-string/property_value-string.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -75,5 +77,5 @@ - + diff --git a/tests/input/obo-compliance/related_synonym/related_synonym.expected.json b/tests/input/obo-compliance/related_synonym/related_synonym.expected.json index cb495f943..41059d049 100644 --- a/tests/input/obo-compliance/related_synonym/related_synonym.expected.json +++ b/tests/input/obo-compliance/related_synonym/related_synonym.expected.json @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym", "lbl" : "has_related_synonym", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/related_synonym/related_synonym.expected.ofn b/tests/input/obo-compliance/related_synonym/related_synonym.expected.ofn index dc8a8fd86..4d41db746 100644 --- a/tests/input/obo-compliance/related_synonym/related_synonym.expected.ofn +++ b/tests/input/obo-compliance/related_synonym/related_synonym.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion(rdfs:label "has_related_synonym") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/related_synonym/related_synonym.expected.owl b/tests/input/obo-compliance/related_synonym/related_synonym.expected.owl index c08bfa1e2..5a5036445 100644 --- a/tests/input/obo-compliance/related_synonym/related_synonym.expected.owl +++ b/tests/input/obo-compliance/related_synonym/related_synonym.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -74,5 +76,5 @@ - + diff --git a/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.json b/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.json index 598c10171..66b8192c1 100644 --- a/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.json +++ b/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.ofn b/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.ofn index cf0757574..8b07b0a9e 100644 --- a/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.ofn +++ b/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.ofn @@ -23,6 +23,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.owl b/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.owl index e050014ae..32e0d4c63 100644 --- a/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.owl +++ b/tests/input/obo-compliance/relationship-annotated/relationship-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -100,5 +102,5 @@ - + diff --git a/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.json b/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.json index ef0a4a24b..4c15c7e99 100644 --- a/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.json +++ b/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.json @@ -29,6 +29,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.ofn b/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.ofn index 0a8c2ee9a..2b844da07 100644 --- a/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.ofn +++ b/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.owl b/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.owl index 3d78a8f42..0082414cd 100644 --- a/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.owl +++ b/tests/input/obo-compliance/relationship-non-logical/relationship-non-logical.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -75,5 +77,5 @@ - + diff --git a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.json b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.json index ca9356aa4..79e1b0e49 100644 --- a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.json +++ b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.json @@ -12,12 +12,20 @@ "type" : "CLASS", "meta" : { "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/skos_exactMatch", + "pred" : "http://www.w3.org/2004/02/skos/core#exactMatch", "val" : "http://purl.obolibrary.org/obo/Y_1" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/skos_exactMatch", + "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", + "lbl" : "has_obo_format_version", + "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" + }, { + "id" : "http://www.w3.org/2004/02/skos/core#exactMatch", "type" : "PROPERTY", "meta" : { "basicPropertyValues" : [ { @@ -25,10 +33,6 @@ "val" : "true" } ] } - }, { - "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", - "lbl" : "has_obo_format_version", - "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.obo b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.obo index e27a3d4e0..ea6c8ef90 100644 --- a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.obo +++ b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.obo @@ -1,4 +1,5 @@ format-version: 1.2 +idspace: skos http://www.w3.org/2004/02/skos/core# ontology: relationship-skos-object [Term] diff --git a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.ofn b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.ofn index f4b377cf4..ef9cd5348 100644 --- a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.ofn +++ b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.ofn @@ -4,29 +4,34 @@ Prefix(rdf:=) Prefix(xml:=) Prefix(xsd:=) Prefix(rdfs:=) +Prefix(skos:=) Ontology( Annotation( "1.4") Declaration(Class()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) +Declaration(AnnotationProperty(skos:exactMatch)) ############################ # Annotation Properties ############################ -# Annotation Property: () - -AnnotationAssertion( "skos:exactMatch") -AnnotationAssertion( "true"^^xsd:boolean) - # Annotation Property: (has_obo_format_version) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + +# Annotation Property: skos:exactMatch (skos:exactMatch) + +AnnotationAssertion( skos:exactMatch "skos:exactMatch") +AnnotationAssertion( skos:exactMatch "true"^^xsd:boolean) + ############################ @@ -35,8 +40,8 @@ AnnotationAssertion(rdfs:label () -AnnotationAssertion( ) AnnotationAssertion( "X:1") +AnnotationAssertion(skos:exactMatch ) ) \ No newline at end of file diff --git a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.owl b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.owl index 69e58c82e..5f0bb6780 100644 --- a/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.owl +++ b/tests/input/obo-compliance/relationship-skos-object/relationship-skos-object.expected.owl @@ -1,12 +1,12 @@ 1.4 @@ -25,15 +25,6 @@ - - - - skos:exactMatch - true - - - - @@ -44,7 +35,9 @@ - + + id + @@ -54,6 +47,15 @@ + + + + skos:exactMatch + true + + + + - X:1 + - + diff --git a/tests/input/obo-compliance/relationship/relationship.expected.json b/tests/input/obo-compliance/relationship/relationship.expected.json index 6988e3cf8..faf904906 100644 --- a/tests/input/obo-compliance/relationship/relationship.expected.json +++ b/tests/input/obo-compliance/relationship/relationship.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/X_1", diff --git a/tests/input/obo-compliance/relationship/relationship.expected.ofn b/tests/input/obo-compliance/relationship/relationship.expected.ofn index 78a87b5c3..51660e037 100644 --- a/tests/input/obo-compliance/relationship/relationship.expected.ofn +++ b/tests/input/obo-compliance/relationship/relationship.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + diff --git a/tests/input/obo-compliance/relationship/relationship.expected.owl b/tests/input/obo-compliance/relationship/relationship.expected.owl index 8c135d96c..2458c0527 100644 --- a/tests/input/obo-compliance/relationship/relationship.expected.owl +++ b/tests/input/obo-compliance/relationship/relationship.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -87,5 +89,5 @@ - + diff --git a/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.json b/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.json index c0d47c82b..ca0669c2a 100644 --- a/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.json +++ b/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.json @@ -17,7 +17,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "X:2" + "val" : "http://purl.obolibrary.org/obo/X_2" } ], "deprecated" : true } @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.ofn b/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.ofn index 617cda7e8..4fc6e0563 100644 --- a/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.ofn +++ b/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.ofn @@ -27,6 +27,10 @@ AnnotationAssertion(rdfs:label "ter AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ @@ -35,7 +39,7 @@ AnnotationAssertion(rdfs:label () -AnnotationAssertion(Annotation( "PMID:123469") "X:2") +AnnotationAssertion(Annotation( "PMID:123469") ) AnnotationAssertion( "X:1") AnnotationAssertion(owl:deprecated "true"^^xsd:boolean) diff --git a/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.owl b/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.owl index 5965d7331..5bb293e24 100644 --- a/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.owl +++ b/tests/input/obo-compliance/replaced_by-annotated/replaced_by-annotated.expected.owl @@ -43,7 +43,9 @@ - + + id + @@ -73,19 +75,19 @@ - X:2 + X:1 true - X:2 + PMID:123469 - + diff --git a/tests/input/obo-compliance/replaced_by/replaced_by.expected.json b/tests/input/obo-compliance/replaced_by/replaced_by.expected.json index f45919bf5..765da1f9e 100644 --- a/tests/input/obo-compliance/replaced_by/replaced_by.expected.json +++ b/tests/input/obo-compliance/replaced_by/replaced_by.expected.json @@ -17,7 +17,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0100001", - "val" : "X:2" + "val" : "http://purl.obolibrary.org/obo/X_2" } ], "deprecated" : true } @@ -25,6 +25,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/replaced_by/replaced_by.expected.ofn b/tests/input/obo-compliance/replaced_by/replaced_by.expected.ofn index a60ef6742..107437824 100644 --- a/tests/input/obo-compliance/replaced_by/replaced_by.expected.ofn +++ b/tests/input/obo-compliance/replaced_by/replaced_by.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion(rdfs:label "ter AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ @@ -34,7 +38,7 @@ AnnotationAssertion(rdfs:label () -AnnotationAssertion( "X:2") +AnnotationAssertion( ) AnnotationAssertion( "X:1") AnnotationAssertion(owl:deprecated "true"^^xsd:boolean) diff --git a/tests/input/obo-compliance/replaced_by/replaced_by.expected.owl b/tests/input/obo-compliance/replaced_by/replaced_by.expected.owl index 0487d04c1..16b4c75a8 100644 --- a/tests/input/obo-compliance/replaced_by/replaced_by.expected.owl +++ b/tests/input/obo-compliance/replaced_by/replaced_by.expected.owl @@ -43,7 +43,9 @@ - + + id + @@ -67,7 +69,7 @@ - X:2 + X:1 true @@ -75,5 +77,5 @@ - + diff --git a/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.json b/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.json index c085f4a0f..7244c6527 100644 --- a/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.json +++ b/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.json @@ -21,6 +21,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#inSubset", "lbl" : "in_subset", diff --git a/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.ofn b/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.ofn index d85a535e4..f4f77cc38 100644 --- a/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.ofn +++ b/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.ofn @@ -34,6 +34,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + # Annotation Property: (in_subset) AnnotationAssertion(rdfs:label "in_subset") diff --git a/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.owl b/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.owl index b05073241..e4b1f21a1 100644 --- a/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.owl +++ b/tests/input/obo-compliance/subset-annotated/subset-annotated.expected.owl @@ -52,7 +52,9 @@ - + + id + @@ -103,5 +105,5 @@ - + diff --git a/tests/input/obo-compliance/subset/subset.expected.json b/tests/input/obo-compliance/subset/subset.expected.json index bca04be00..f1b3a22a9 100644 --- a/tests/input/obo-compliance/subset/subset.expected.json +++ b/tests/input/obo-compliance/subset/subset.expected.json @@ -21,6 +21,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" }, { "id" : "http://www.geneontology.org/formats/oboInOwl#inSubset", "lbl" : "in_subset", diff --git a/tests/input/obo-compliance/subset/subset.expected.ofn b/tests/input/obo-compliance/subset/subset.expected.ofn index 7391c5ef6..6d433db4e 100644 --- a/tests/input/obo-compliance/subset/subset.expected.ofn +++ b/tests/input/obo-compliance/subset/subset.expected.ofn @@ -33,6 +33,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + # Annotation Property: (in_subset) AnnotationAssertion(rdfs:label "in_subset") diff --git a/tests/input/obo-compliance/subset/subset.expected.owl b/tests/input/obo-compliance/subset/subset.expected.owl index d53a26963..df0b89da7 100644 --- a/tests/input/obo-compliance/subset/subset.expected.owl +++ b/tests/input/obo-compliance/subset/subset.expected.owl @@ -52,7 +52,9 @@ - + + id + @@ -91,5 +93,5 @@ - + diff --git a/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.json b/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.json index 1650ae273..31a1427ca 100644 --- a/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.json +++ b/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.json @@ -30,6 +30,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.ofn b/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.ofn index 842afd003..228b81f99 100644 --- a/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.ofn +++ b/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.ofn @@ -31,6 +31,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.owl b/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.owl index 34d42207e..0e3dde5e3 100644 --- a/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.owl +++ b/tests/input/obo-compliance/synonym-with-multiple_xrefs/synonym-with-multiple_xrefs.expected.owl @@ -50,7 +50,9 @@ - + + id + @@ -89,5 +91,5 @@ - + diff --git a/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.json b/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.json index 3dabe9d42..e49b7bae3 100644 --- a/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.json +++ b/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.json @@ -30,6 +30,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasRelatedSynonym", "lbl" : "has_related_synonym", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.ofn b/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.ofn index b3d198c13..adf01d5e5 100644 --- a/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.ofn +++ b/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.ofn @@ -31,6 +31,10 @@ AnnotationAssertion(rdfs:label "has_related_synonym") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.owl b/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.owl index b5697be4b..e1ec793c0 100644 --- a/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.owl +++ b/tests/input/obo-compliance/synonym-with-scope-and-xref/synonym-with-scope-and-xref.expected.owl @@ -50,7 +50,9 @@ - + + id + @@ -88,5 +90,5 @@ - + diff --git a/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.json b/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.json index b61cb4ff0..102534d73 100644 --- a/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.json +++ b/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.json @@ -30,6 +30,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasSynonymType", "lbl" : "has_synonym_type", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.ofn b/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.ofn index 6dc12fd8d..384919bd4 100644 --- a/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.ofn +++ b/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.ofn @@ -31,6 +31,10 @@ AnnotationAssertion(rdfs:label "has_synonym_type") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.owl b/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.owl index b39df3082..1cec23ba9 100644 --- a/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.owl +++ b/tests/input/obo-compliance/synonym-with-type/synonym-with-type.expected.owl @@ -50,7 +50,9 @@ - + + id + @@ -88,5 +90,5 @@ - + diff --git a/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.json b/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.json index 7e31dac54..edaf5561c 100644 --- a/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.json +++ b/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.json @@ -30,6 +30,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.ofn b/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.ofn index 38f59f88d..13d3b6669 100644 --- a/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.ofn +++ b/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.ofn @@ -31,6 +31,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.owl b/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.owl index 42a8417ad..47c5af5dc 100644 --- a/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.owl +++ b/tests/input/obo-compliance/synonym-with-xref/synonym-with-xref.expected.owl @@ -50,7 +50,9 @@ - + + id + @@ -88,5 +90,5 @@ - + diff --git a/tests/input/obo-compliance/synonymtypedef-definition/synonymtypedef-definition.expected.owl b/tests/input/obo-compliance/synonymtypedef-definition/synonymtypedef-definition.expected.owl index d28ca4324..3cf87d41a 100644 --- a/tests/input/obo-compliance/synonymtypedef-definition/synonymtypedef-definition.expected.owl +++ b/tests/input/obo-compliance/synonymtypedef-definition/synonymtypedef-definition.expected.owl @@ -57,5 +57,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.json b/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.json index 6373d69bd..f62fc8aff 100644 --- a/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.json +++ b/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.ofn b/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.ofn index d684dc723..22089d0db 100644 --- a/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.ofn +++ b/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.ofn @@ -20,6 +20,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.owl b/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.owl index 282727508..b26910075 100644 --- a/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.owl +++ b/tests/input/obo-compliance/typedef-declaration/typedef-declaration.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -58,5 +60,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-def/typedef-def.expected.json b/tests/input/obo-compliance/typedef-def/typedef-def.expected.json index 34c320191..7d8be73b0 100644 --- a/tests/input/obo-compliance/typedef-def/typedef-def.expected.json +++ b/tests/input/obo-compliance/typedef-def/typedef-def.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-def/typedef-def.expected.ofn b/tests/input/obo-compliance/typedef-def/typedef-def.expected.ofn index 83d8631c3..9698240bb 100644 --- a/tests/input/obo-compliance/typedef-def/typedef-def.expected.ofn +++ b/tests/input/obo-compliance/typedef-def/typedef-def.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "def AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-def/typedef-def.expected.owl b/tests/input/obo-compliance/typedef-def/typedef-def.expected.owl index 8bdcc9983..0180f850f 100644 --- a/tests/input/obo-compliance/typedef-def/typedef-def.expected.owl +++ b/tests/input/obo-compliance/typedef-def/typedef-def.expected.owl @@ -43,7 +43,9 @@ - + + id + @@ -68,5 +70,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.json b/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.json index d0dae9e5a..77b06fbe1 100644 --- a/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.json +++ b/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "domainRangeAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/R_1", diff --git a/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.ofn b/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.ofn index ebfb176f5..b3b55587d 100644 --- a/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.ofn +++ b/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.owl b/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.owl index 8b1087501..b4660d0aa 100644 --- a/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.owl +++ b/tests/input/obo-compliance/typedef-domain/typedef-domain.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -76,5 +78,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.json b/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.json index fa85697ca..089a9fa46 100644 --- a/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.json +++ b/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/R_1", diff --git a/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.ofn b/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.ofn index 9a6319a2c..8a0d9b8bd 100644 --- a/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.ofn +++ b/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.owl b/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.owl index 9dc50ed9f..40a7c1f8f 100644 --- a/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.owl +++ b/tests/input/obo-compliance/typedef-inverse_of/typedef-inverse_of.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.json b/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.json index a74f68039..7af035958 100644 --- a/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.json +++ b/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.json @@ -20,6 +20,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.ofn b/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.ofn index 3f14b9478..b2662bf6a 100644 --- a/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.ofn +++ b/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ) \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.owl b/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.owl index 394a9b792..6fb4de928 100644 --- a/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.owl +++ b/tests/input/obo-compliance/typedef-is_a-metadata/typedef-is_a-metadata.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -55,5 +57,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.json b/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.json index 631052842..759f9ed56 100644 --- a/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.json +++ b/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "edges" : [ { "sub" : "http://purl.obolibrary.org/obo/R_1", diff --git a/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.ofn b/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.ofn index 12568b8e4..ed4d00102 100644 --- a/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.ofn +++ b/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.owl b/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.owl index b853ded85..bd28274a0 100644 --- a/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.owl +++ b/tests/input/obo-compliance/typedef-is_a/typedef-is_a.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.json b/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.json index 9095ebb83..e329a3048 100644 --- a/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.json +++ b/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.json @@ -20,6 +20,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.ofn b/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.ofn index c3b54df1d..02e073d76 100644 --- a/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.ofn +++ b/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.owl b/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.owl index 8508586c8..5ac4bd6b2 100644 --- a/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.owl +++ b/tests/input/obo-compliance/typedef-is_class_level/typedef-is_class_level.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.json b/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.json index f90e8d4c4..c0f479499 100644 --- a/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.json +++ b/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.ofn b/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.ofn index 3b0b10f79..87bdb1fd9 100644 --- a/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.ofn +++ b/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.ofn @@ -28,6 +28,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ) \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.owl b/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.owl index d01d1a691..e5cc61e0c 100644 --- a/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.owl +++ b/tests/input/obo-compliance/typedef-is_metadata_tag-is_class_level/typedef-is_metadata_tag-is_class_level.expected.owl @@ -45,7 +45,9 @@ - + + id + @@ -62,5 +64,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.json b/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.json index c007a1938..45a1f3216 100644 --- a/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.json +++ b/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.json @@ -20,6 +20,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.ofn b/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.ofn index 9997bf7dd..26c029d79 100644 --- a/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.ofn +++ b/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ) \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.owl b/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.owl index a5141a7eb..08400c4e8 100644 --- a/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.owl +++ b/tests/input/obo-compliance/typedef-is_metadata_tag/typedef-is_metadata_tag.expected.owl @@ -44,7 +44,9 @@ - + + id + @@ -55,5 +57,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-name/typedef-name.expected.json b/tests/input/obo-compliance/typedef-name/typedef-name.expected.json index 778ff8a8f..99dc8f065 100644 --- a/tests/input/obo-compliance/typedef-name/typedef-name.expected.json +++ b/tests/input/obo-compliance/typedef-name/typedef-name.expected.json @@ -15,6 +15,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-name/typedef-name.expected.ofn b/tests/input/obo-compliance/typedef-name/typedef-name.expected.ofn index 8e78508bd..6d76642f3 100644 --- a/tests/input/obo-compliance/typedef-name/typedef-name.expected.ofn +++ b/tests/input/obo-compliance/typedef-name/typedef-name.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty(rdfs:label)) AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-name/typedef-name.expected.owl b/tests/input/obo-compliance/typedef-name/typedef-name.expected.owl index 3899ec7df..6b1fad05c 100644 --- a/tests/input/obo-compliance/typedef-name/typedef-name.expected.owl +++ b/tests/input/obo-compliance/typedef-name/typedef-name.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -65,5 +67,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-range/typedef-range.expected.json b/tests/input/obo-compliance/typedef-range/typedef-range.expected.json index e3b085238..5c7262804 100644 --- a/tests/input/obo-compliance/typedef-range/typedef-range.expected.json +++ b/tests/input/obo-compliance/typedef-range/typedef-range.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "domainRangeAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/R_1", diff --git a/tests/input/obo-compliance/typedef-range/typedef-range.expected.ofn b/tests/input/obo-compliance/typedef-range/typedef-range.expected.ofn index 3fe8bc423..538dc9126 100644 --- a/tests/input/obo-compliance/typedef-range/typedef-range.expected.ofn +++ b/tests/input/obo-compliance/typedef-range/typedef-range.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-range/typedef-range.expected.owl b/tests/input/obo-compliance/typedef-range/typedef-range.expected.owl index 75bf5e2bb..dd0d8252d 100644 --- a/tests/input/obo-compliance/typedef-range/typedef-range.expected.owl +++ b/tests/input/obo-compliance/typedef-range/typedef-range.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -76,5 +78,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.json b/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.json index d061ba3b9..4c9658a87 100644 --- a/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.json +++ b/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ], "propertyChainAxioms" : [ { "predicateId" : "http://purl.obolibrary.org/obo/R_1", diff --git a/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.ofn b/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.ofn index 2580b2f0b..e2200ba25 100644 --- a/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.ofn +++ b/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.ofn @@ -21,6 +21,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.owl b/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.owl index 2ff8cab4a..fcba09784 100644 --- a/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.owl +++ b/tests/input/obo-compliance/typedef-transitive_over/typedef-transitive_over.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -68,5 +70,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.json b/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.json index f951f41fa..1f5698fce 100644 --- a/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.json +++ b/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.json @@ -27,6 +27,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.ofn b/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.ofn index b51072515..0393133f6 100644 --- a/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.ofn +++ b/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.ofn @@ -32,6 +32,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ) \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.owl b/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.owl index 1f844d362..6a0cdad26 100644 --- a/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.owl +++ b/tests/input/obo-compliance/typedef-xref-anyiri-ann/typedef-xref-anyiri-ann.expected.owl @@ -53,7 +53,9 @@ - + + id + @@ -64,5 +66,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.json b/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.json index 2e5dd5d06..d7f942c9a 100644 --- a/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.json +++ b/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.ofn b/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.ofn index 50e32c6f2..fedab7378 100644 --- a/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.ofn +++ b/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.owl b/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.owl index 9d8508290..795127af0 100644 --- a/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.owl +++ b/tests/input/obo-compliance/typedef-xref-anyiri/typedef-xref-anyiri.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -67,5 +69,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.json b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.json index 81c76e009..db39bd725 100644 --- a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.json +++ b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.obo b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.obo index 420414122..18746e04b 100644 --- a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.obo +++ b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.obo @@ -1,6 +1,5 @@ format-version: 1.2 ontology: typedef-xref-ro -owl-axioms: Prefix(owl:=)\nPrefix(rdf:=)\nPrefix(xml:=)\nPrefix(xsd:=)\nPrefix(rdfs:=)\n\n\nOntology(\nDeclaration(AnnotationProperty())\n\n\nAnnotationAssertion( \"R:1\")\n) [Typedef] id: RO:0000000 diff --git a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.ofn b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.ofn index 442bd687b..251ba8947 100644 --- a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.ofn +++ b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.owl b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.owl index 644d4bf22..7f3890840 100644 --- a/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.owl +++ b/tests/input/obo-compliance/typedef-xref-ro/typedef-xref-ro.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -67,5 +69,5 @@ - + diff --git a/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.json b/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.json index 2cd6c117a..3940f89fb 100644 --- a/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.json +++ b/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.ofn b/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.ofn index 2be9bab1c..7ab7ef06a 100644 --- a/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.ofn +++ b/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ # Object Properties diff --git a/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.owl b/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.owl index 58c8f2539..853b95d67 100644 --- a/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.owl +++ b/tests/input/obo-compliance/typedef-xref/typedef-xref.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -67,5 +69,5 @@ - + diff --git a/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.json b/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.json index 47bf6bd50..e054ccbd4 100644 --- a/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.json +++ b/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.ofn b/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.ofn index 53ddf9c7b..b592f179d 100644 --- a/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.ofn +++ b/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.ofn @@ -23,6 +23,10 @@ Declaration(AnnotationProperty( "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.owl b/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.owl index ed6551e44..ac62f225e 100644 --- a/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.owl +++ b/tests/input/obo-compliance/union_of-annotated/union_of-annotated.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -89,5 +91,5 @@ - + diff --git a/tests/input/obo-compliance/union_of/union_of.expected.json b/tests/input/obo-compliance/union_of/union_of.expected.json index a344e8c54..ffe819376 100644 --- a/tests/input/obo-compliance/union_of/union_of.expected.json +++ b/tests/input/obo-compliance/union_of/union_of.expected.json @@ -11,6 +11,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/union_of/union_of.expected.ofn b/tests/input/obo-compliance/union_of/union_of.expected.ofn index 3e3cb0893..4715461a7 100644 --- a/tests/input/obo-compliance/union_of/union_of.expected.ofn +++ b/tests/input/obo-compliance/union_of/union_of.expected.ofn @@ -22,6 +22,10 @@ Declaration(AnnotationProperty( AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/union_of/union_of.expected.owl b/tests/input/obo-compliance/union_of/union_of.expected.owl index ef0bfc0e6..5d5dfbb26 100644 --- a/tests/input/obo-compliance/union_of/union_of.expected.owl +++ b/tests/input/obo-compliance/union_of/union_of.expected.owl @@ -34,7 +34,9 @@ - + + id + @@ -78,5 +80,5 @@ - + diff --git a/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.json b/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.json index ed7adb01a..458d0d56c 100644 --- a/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.json +++ b/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.ofn b/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.ofn index c715ce5da..3f701ca5c 100644 --- a/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.ofn +++ b/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.ofn @@ -26,6 +26,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.owl b/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.owl index d98370827..af1fd3a43 100644 --- a/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.owl +++ b/tests/input/obo-compliance/xref-annotated/xref-annotated.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -79,5 +81,5 @@ - + diff --git a/tests/input/obo-compliance/xref/xref.expected.json b/tests/input/obo-compliance/xref/xref.expected.json index 4f5d78300..1f75dd85a 100644 --- a/tests/input/obo-compliance/xref/xref.expected.json +++ b/tests/input/obo-compliance/xref/xref.expected.json @@ -23,6 +23,10 @@ "id" : "http://www.geneontology.org/formats/oboInOwl#hasOBOFormatVersion", "lbl" : "has_obo_format_version", "type" : "PROPERTY" + }, { + "id" : "http://www.geneontology.org/formats/oboInOwl#id", + "lbl" : "id", + "type" : "PROPERTY" } ] } ] } \ No newline at end of file diff --git a/tests/input/obo-compliance/xref/xref.expected.ofn b/tests/input/obo-compliance/xref/xref.expected.ofn index 52c70cdce..4a406ed96 100644 --- a/tests/input/obo-compliance/xref/xref.expected.ofn +++ b/tests/input/obo-compliance/xref/xref.expected.ofn @@ -25,6 +25,10 @@ AnnotationAssertion(rdfs:label "has_obo_format_version") +# Annotation Property: (id) + +AnnotationAssertion(rdfs:label "id") + ############################ diff --git a/tests/input/obo-compliance/xref/xref.expected.owl b/tests/input/obo-compliance/xref/xref.expected.owl index 7c2488fe7..94106c279 100644 --- a/tests/input/obo-compliance/xref/xref.expected.owl +++ b/tests/input/obo-compliance/xref/xref.expected.owl @@ -42,7 +42,9 @@ - + + id + @@ -67,5 +69,5 @@ - +