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adding space for qualifiers #23

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Merged
sierra-moxon merged 4 commits into from
Mar 16, 2024
Merged

adding space for qualifiers #23

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20e5ffe
adding space for qualifiers
sierra-moxon Mar 4, 2024
8ef9df0
add assets for march
sierra-moxon Mar 4, 2024
3a35703
minor changes to semantics of the name
sierra-moxon Mar 11, 2024
24b318a
merge main
sierra-moxon Mar 11, 2024
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390 changes: 390 additions & 0 deletions pf_test_assets_030424.tsv
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334 changes: 334 additions & 0 deletions pf_test_assets_2024_02_02.tsv
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189 changes: 181 additions & 8 deletions poetry.lock
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Binary file modified project/excel/translator_testing_model.xlsx
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15 changes: 15 additions & 0 deletions project/graphql/translator_testing_model.graphql
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Original file line number Diff line number Diff line change
Expand Up @@ -20,6 +20,11 @@ type AcceptanceTestAsset
testReference: Uriorcurie
runnerSettings: [String]!
testMetadata: TestMetadata!
biolinkQualifiedPredicate: Uriorcurie
biolinkSubjectAspectQualifier: String
biolinkSubjectDirectionQualifier: String
biolinkObjectAspectQualifier: String
biolinkObjectDirectionQualifier: String
id: Uriorcurie!
tags: [String]
mustPassDate: Date
Expand Down Expand Up @@ -212,6 +217,11 @@ type TestAsset
testReference: Uriorcurie
runnerSettings: [String]!
testMetadata: TestMetadata!
biolinkQualifiedPredicate: Uriorcurie
biolinkSubjectAspectQualifier: String
biolinkSubjectDirectionQualifier: String
biolinkObjectAspectQualifier: String
biolinkObjectDirectionQualifier: String
id: Uriorcurie!
tags: [String]
}
Expand Down Expand Up @@ -269,6 +279,11 @@ type TestEdgeData
testReference: Uriorcurie
runnerSettings: [String]!
testMetadata: TestMetadata!
biolinkQualifiedPredicate: Uriorcurie
biolinkSubjectAspectQualifier: String
biolinkSubjectDirectionQualifier: String
biolinkObjectAspectQualifier: String
biolinkObjectDirectionQualifier: String
id: Uriorcurie!
tags: [String]
}
Expand Down
8 changes: 7 additions & 1 deletion project/jsonld/translator_testing_model.context.jsonld
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
{
"comments": {
"description": "Auto generated by LinkML jsonld context generator",
"generation_date": "2023-12-07T10:24:07",
"generation_date": "2024-03-04T11:39:59",
"source": "translator_testing_model.yaml"
},
"@context": {
Expand All @@ -15,6 +15,12 @@
"association": {
"@type": "@id"
},
"biolink_predicate": {
"@type": "@id"
},
"biolink_qualified_predicate": {
"@type": "@id"
},
"components": {
"@context": {
"@vocab": "@null",
Expand Down
119 changes: 99 additions & 20 deletions project/jsonld/translator_testing_model.jsonld
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Expand Up @@ -631,24 +631,14 @@
{
"name": "ComponentEnum",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/ComponentEnum",
"description": "Translator components are identified by their InfoRes identifiers.",
"from_schema": "https://w3id.org/TranslatorSRI/TranslatorTestingModel",
"permissible_values": [
{
"text": "arax"
},
{
"text": "aragorn"
},
{
"text": "ars"
},
{
"text": "bte"
},
{
"text": "improving"
}
]
"reachable_from": {
"source_ontology": "biolink",
"source_nodes": [
"biolink:infores"
]
}
},
{
"name": "TestPersonaEnum",
Expand Down Expand Up @@ -1140,6 +1130,80 @@
"range": "string",
"@type": "SlotDefinition"
},
{
"name": "biolink_predicate",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_predicate",
"description": "the predicate in Biolink model corresponding to the shorthand predicate name used in the test asset.",
"from_schema": "https://w3id.org/TranslatorSRI/TranslatorTestingModel",
"slot_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_predicate",
"range": "uriorcurie",
"@type": "SlotDefinition"
},
{
"name": "biolink_subject_aspect_qualifier",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_subject_aspect_qualifier",
"description": "The aspect of the subject of the test asset predicate",
"from_schema": "https://w3id.org/TranslatorSRI/TranslatorTestingModel",
"slot_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_subject_aspect_qualifier",
"owner": "TestAsset",
"domain_of": [
"TestAsset"
],
"range": "string",
"@type": "SlotDefinition"
},
{
"name": "biolink_subject_direction_qualifier",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_subject_direction_qualifier",
"description": "The direction of the subject of the test asset predicate",
"from_schema": "https://w3id.org/TranslatorSRI/TranslatorTestingModel",
"slot_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_subject_direction_qualifier",
"owner": "TestAsset",
"domain_of": [
"TestAsset"
],
"range": "string",
"@type": "SlotDefinition"
},
{
"name": "biolink_object_aspect_qualifier",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_object_aspect_qualifier",
"description": "The aspect of the object of the test asset predicate",
"from_schema": "https://w3id.org/TranslatorSRI/TranslatorTestingModel",
"slot_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_object_aspect_qualifier",
"owner": "TestAsset",
"domain_of": [
"TestAsset"
],
"range": "string",
"@type": "SlotDefinition"
},
{
"name": "biolink_object_direction_qualifier",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_object_direction_qualifier",
"description": "The direction of the object of the test asset predicate",
"from_schema": "https://w3id.org/TranslatorSRI/TranslatorTestingModel",
"slot_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_object_direction_qualifier",
"owner": "TestAsset",
"domain_of": [
"TestAsset"
],
"range": "string",
"@type": "SlotDefinition"
},
{
"name": "biolink_qualified_predicate",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_qualified_predicate",
"description": "The qualified_predicate in Biolink model corresponding to the shorthand predicate name used in the test asset.",
"from_schema": "https://w3id.org/TranslatorSRI/TranslatorTestingModel",
"slot_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/biolink_qualified_predicate",
"owner": "TestAsset",
"domain_of": [
"TestAsset"
],
"range": "uriorcurie",
"@type": "SlotDefinition"
},
{
"name": "output_id",
"definition_uri": "https://w3id.org/TranslatorSRI/TranslatorTestingModel/output_id",
Expand Down Expand Up @@ -2122,6 +2186,11 @@
"test_reference",
"TestAsset_runner_settings",
"test_metadata",
"biolink_qualified_predicate",
"biolink_subject_aspect_qualifier",
"biolink_subject_direction_qualifier",
"biolink_object_aspect_qualifier",
"biolink_object_direction_qualifier",
"TestAsset_id",
"TestAsset_tags"
],
Expand Down Expand Up @@ -2156,6 +2225,11 @@
"test_reference",
"TestAsset_runner_settings",
"test_metadata",
"biolink_qualified_predicate",
"biolink_subject_aspect_qualifier",
"biolink_subject_direction_qualifier",
"biolink_object_aspect_qualifier",
"biolink_object_direction_qualifier",
"TestAsset_id",
"TestAsset_tags",
"must_pass_date",
Expand Down Expand Up @@ -2200,6 +2274,11 @@
"test_reference",
"TestAsset_runner_settings",
"test_metadata",
"biolink_qualified_predicate",
"biolink_subject_aspect_qualifier",
"biolink_subject_direction_qualifier",
"biolink_object_aspect_qualifier",
"biolink_object_direction_qualifier",
"TestAsset_id",
"TestAsset_tags"
],
Expand Down Expand Up @@ -2599,9 +2678,9 @@
],
"metamodel_version": "1.7.0",
"source_file": "translator_testing_model.yaml",
"source_file_date": "2023-12-07T10:23:17",
"source_file_size": 26460,
"generation_date": "2023-12-07T10:24:08",
"source_file_date": "2024-03-04T11:39:55",
"source_file_size": 27623,
"generation_date": "2024-03-04T11:40:00",
"@type": "SchemaDefinition",
"@context": [
"project/jsonld/translator_testing_model.context.jsonld",
Expand Down
69 changes: 61 additions & 8 deletions project/jsonschema/translator_testing_model.schema.json
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Expand Up @@ -12,6 +12,26 @@
"description": "Specific Biolink Model association 'category' which applies to the test asset defined knowledge statement",
"type": "string"
},
"biolink_object_aspect_qualifier": {
"description": "The aspect of the object of the test asset predicate",
"type": "string"
},
"biolink_object_direction_qualifier": {
"description": "The direction of the object of the test asset predicate",
"type": "string"
},
"biolink_qualified_predicate": {
"description": "The qualified_predicate in Biolink model corresponding to the shorthand predicate name used in the test asset.",
"type": "string"
},
"biolink_subject_aspect_qualifier": {
"description": "The aspect of the subject of the test asset predicate",
"type": "string"
},
"biolink_subject_direction_qualifier": {
"description": "The direction of the subject of the test asset predicate",
"type": "string"
},
"description": {
"description": "A human-readable description for a Test Entity",
"type": "string"
Expand Down Expand Up @@ -379,14 +399,7 @@
"type": "object"
},
"ComponentEnum": {
"description": "",
"enum": [
"arax",
"aragorn",
"ars",
"bte",
"improving"
],
"description": "Translator components are identified by their InfoRes identifiers.",
"title": "ComponentEnum",
"type": "string"
},
Expand Down Expand Up @@ -874,6 +887,26 @@
"description": "Specific Biolink Model association 'category' which applies to the test asset defined knowledge statement",
"type": "string"
},
"biolink_object_aspect_qualifier": {
"description": "The aspect of the object of the test asset predicate",
"type": "string"
},
"biolink_object_direction_qualifier": {
"description": "The direction of the object of the test asset predicate",
"type": "string"
},
"biolink_qualified_predicate": {
"description": "The qualified_predicate in Biolink model corresponding to the shorthand predicate name used in the test asset.",
"type": "string"
},
"biolink_subject_aspect_qualifier": {
"description": "The aspect of the subject of the test asset predicate",
"type": "string"
},
"biolink_subject_direction_qualifier": {
"description": "The direction of the subject of the test asset predicate",
"type": "string"
},
"description": {
"description": "A human-readable description for a Test Entity",
"type": "string"
Expand Down Expand Up @@ -1238,6 +1271,26 @@
"description": "Specific Biolink Model association 'category' which applies to the test asset defined knowledge statement",
"type": "string"
},
"biolink_object_aspect_qualifier": {
"description": "The aspect of the object of the test asset predicate",
"type": "string"
},
"biolink_object_direction_qualifier": {
"description": "The direction of the object of the test asset predicate",
"type": "string"
},
"biolink_qualified_predicate": {
"description": "The qualified_predicate in Biolink model corresponding to the shorthand predicate name used in the test asset.",
"type": "string"
},
"biolink_subject_aspect_qualifier": {
"description": "The aspect of the subject of the test asset predicate",
"type": "string"
},
"biolink_subject_direction_qualifier": {
"description": "The direction of the subject of the test asset predicate",
"type": "string"
},
"description": {
"description": "A human-readable description for a Test Entity",
"type": "string"
Expand Down
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