chore: regen

sdsc-ordes · Dec 22, 2023 · 96c64eb · 96c64eb
1 parent b02979b
commit 96c64eb
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Showing 11 changed files with 556 additions and 376 deletions.
diff --git a/project/excel/smoc_schema.xlsx b/project/excel/smoc_schema.xlsx
diff --git a/project/graphql/smoc_schema.graphql b/project/graphql/smoc_schema.graphql
@@ -1,14 +1,14 @@
 type AlignmentSet
   {
-    uri: Uri!
+    location: Uri!
     dataFormat: DataFormat!
     hasSample: [Sample]
     hasReference: ReferenceGenome
   }
 
 type Array
   {
-    uri: Uri!
+    location: Uri!
     dataFormat: DataFormat!
     hasSample: [Sample]
     hasReference: ReferenceGenome
@@ -22,7 +22,7 @@ type Assay
 
 type DataEntity
   {
-    uri: Uri!
+    location: Uri!
     dataFormat: DataFormat!
     hasSample: [Sample]
     hasReference: ReferenceGenome
@@ -46,7 +46,7 @@ type ReferenceGenome
 type ReferenceSequence
   {
     name: String
-    uri: Uri!
+    location: Uri!
     sequenceMd5: String
     sourceUri: Uri
   }
@@ -74,7 +74,7 @@ type StudyCollection
 
 type VariantSet
   {
-    uri: Uri!
+    location: Uri!
     dataFormat: DataFormat!
     hasSample: [Sample]
     hasReference: ReferenceGenome

diff --git a/project/jsonld/smoc_schema.context.jsonld b/project/jsonld/smoc_schema.context.jsonld
@@ -1,7 +1,7 @@
 {
    "comments": {
       "description": "Auto generated by LinkML jsonld context generator",
-      "generation_date": "2023-12-22T13:53:26",
+      "generation_date": "2023-12-22T14:22:06",
       "source": "smoc_schema.yaml"
    },
    "@context": {
@@ -51,6 +51,9 @@
          "@type": "@id"
       },
       "id": "@id",
+      "location": {
+         "@type": "@id"
+      },
       "name": {
          "@id": "schema:name"
       },
@@ -75,9 +78,6 @@
       "taxon_id": {
          "@type": "xsd:integer"
       },
-      "uri": {
-         "@type": "@id"
-      },
       "NamedThing": {
          "@id": "schema:Thing"
       }

diff --git a/project/jsonld/smoc_schema.jsonld b/project/jsonld/smoc_schema.jsonld
@@ -602,11 +602,11 @@
       "@type": "SlotDefinition"
     },
     {
-      "name": "uri",
-      "definition_uri": "https://w3id.org/sdsc-ordes/smoc-schema/uri",
-      "description": "The uniform resource identifier to use to access a resource, either on the web or the filesystem",
+      "name": "location",
+      "definition_uri": "https://w3id.org/sdsc-ordes/smoc-schema/location",
+      "description": "The uniform resource identifier to access a resource, either on the web or the filesystem",
       "from_schema": "https://w3id.org/sdsc-ordes/smoc-schema",
-      "slot_uri": "https://w3id.org/sdsc-ordes/smoc-schema/uri",
+      "slot_uri": "https://w3id.org/sdsc-ordes/smoc-schema/location",
       "owner": "ReferenceSequence",
       "domain_of": [
         "DataEntity",
@@ -768,7 +768,7 @@
       "description": "An entity containing data.",
       "from_schema": "https://w3id.org/sdsc-ordes/smoc-schema",
       "slots": [
-        "uri",
+        "location",
         "data_format",
         "has_sample",
         "has_reference"
@@ -799,7 +799,7 @@
       "from_schema": "https://w3id.org/sdsc-ordes/smoc-schema",
       "slots": [
         "name",
-        "uri",
+        "location",
         "sequence_md5",
         "source_uri"
       ],
@@ -814,7 +814,7 @@
       "from_schema": "https://w3id.org/sdsc-ordes/smoc-schema",
       "is_a": "DataEntity",
       "slots": [
-        "uri",
+        "location",
         "data_format",
         "has_sample",
         "has_reference"
@@ -830,7 +830,7 @@
       "from_schema": "https://w3id.org/sdsc-ordes/smoc-schema",
       "is_a": "DataEntity",
       "slots": [
-        "uri",
+        "location",
         "data_format",
         "has_sample",
         "has_reference"
@@ -846,7 +846,7 @@
       "from_schema": "https://w3id.org/sdsc-ordes/smoc-schema",
       "is_a": "DataEntity",
       "slots": [
-        "uri",
+        "location",
         "data_format",
         "has_sample",
         "has_reference"
@@ -880,9 +880,9 @@
   ],
   "metamodel_version": "1.7.0",
   "source_file": "smoc_schema.yaml",
-  "source_file_date": "2023-12-22T13:51:54",
-  "source_file_size": 6468,
-  "generation_date": "2023-12-22T13:53:27",
+  "source_file_date": "2023-12-22T14:21:54",
+  "source_file_size": 6476,
+  "generation_date": "2023-12-22T14:22:07",
   "@type": "SchemaDefinition",
   "@context": [
     "project/jsonld/smoc_schema.context.jsonld",

diff --git a/project/jsonschema/smoc_schema.schema.json b/project/jsonschema/smoc_schema.schema.json
@@ -19,13 +19,13 @@
                     },
                     "type": "array"
                 },
-                "uri": {
-                    "description": "The uniform resource identifier to use to access a resource, either on the web or the filesystem",
+                "location": {
+                    "description": "The uniform resource identifier to access a resource, either on the web or the filesystem",
                     "type": "string"
                 }
             },
             "required": [
-                "uri",
+                "location",
                 "data_format"
             ],
             "title": "AlignmentSet",
@@ -50,13 +50,13 @@
                     },
                     "type": "array"
                 },
-                "uri": {
-                    "description": "The uniform resource identifier to use to access a resource, either on the web or the filesystem",
+                "location": {
+                    "description": "The uniform resource identifier to access a resource, either on the web or the filesystem",
                     "type": "string"
                 }
             },
             "required": [
-                "uri",
+                "location",
                 "data_format"
             ],
             "title": "Array",
@@ -103,13 +103,13 @@
                     },
                     "type": "array"
                 },
-                "uri": {
-                    "description": "The uniform resource identifier to use to access a resource, either on the web or the filesystem",
+                "location": {
+                    "description": "The uniform resource identifier to access a resource, either on the web or the filesystem",
                     "type": "string"
                 }
             },
             "required": [
-                "uri",
+                "location",
                 "data_format"
             ],
             "title": "DataEntity",
@@ -193,6 +193,10 @@
             "additionalProperties": false,
             "description": "A contiguous sequence of DNA part of a reference coordinate system (genome assembly).",
             "properties": {
+                "location": {
+                    "description": "The uniform resource identifier to access a resource, either on the web or the filesystem",
+                    "type": "string"
+                },
                 "name": {
                     "description": "A human-readable name for a thing",
                     "type": "string"
@@ -205,14 +209,10 @@
                 "source_uri": {
                     "description": "The URI from which a resource was obtained.",
                     "type": "string"
-                },
-                "uri": {
-                    "description": "The uniform resource identifier to use to access a resource, either on the web or the filesystem",
-                    "type": "string"
                 }
             },
             "required": [
-                "uri"
+                "location"
             ],
             "title": "ReferenceSequence",
             "type": "object"
@@ -353,13 +353,13 @@
                     },
                     "type": "array"
                 },
-                "uri": {
-                    "description": "The uniform resource identifier to use to access a resource, either on the web or the filesystem",
+                "location": {
+                    "description": "The uniform resource identifier to access a resource, either on the web or the filesystem",
                     "type": "string"
                 }
             },
             "required": [
-                "uri",
+                "location",
                 "data_format"
             ],
             "title": "VariantSet",
@@ -369,6 +369,7 @@
     "$id": "https://w3id.org/sdsc-ordes/smoc-schema",
     "$schema": "http://json-schema.org/draft-07/schema#",
     "additionalProperties": true,
+    "description": "A holder for Study objects",
     "metamodel_version": "1.7.0",
     "properties": {
         "entries": {