Regenerate schema artifacts

project/gocam.py

@@ -1,5 +1,5 @@
 # Auto generated from gocam.yaml by pythongen.py version: 0.0.1
-# Generation date: 2024-08-28T17:21:26
+# Generation date: 2024-08-30T10:47:21
 # Schema: gocam
 #
 # id: https://w3id.org/gocam
@@ -212,6 +212,7 @@ class Activity(YAMLRoot):
     occurs_in: Optional[Union[dict, "CellularAnatomicalEntityAssociation"]] = None
     part_of: Optional[Union[dict, "BiologicalProcessAssociation"]] = None
     has_direct_input: Optional[Union[dict, "MoleculeAssociation"]] = None
+    has_direct_output: Optional[Union[dict, "MoleculeAssociation"]] = None
     causal_associations: Optional[Union[Union[dict, "CausalAssociation"], List[Union[dict, "CausalAssociation"]]]] = empty_list()
     provenances: Optional[Union[Union[dict, "ProvenanceInfo"], List[Union[dict, "ProvenanceInfo"]]]] = empty_list()
 
@@ -236,6 +237,9 @@ def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]):
         if self.has_direct_input is not None and not isinstance(self.has_direct_input, MoleculeAssociation):
             self.has_direct_input = MoleculeAssociation(**as_dict(self.has_direct_input))
 
+        if self.has_direct_output is not None and not isinstance(self.has_direct_output, MoleculeAssociation):
+            self.has_direct_output = MoleculeAssociation(**as_dict(self.has_direct_output))
+
         if not isinstance(self.causal_associations, list):
             self.causal_associations = [self.causal_associations] if self.causal_associations is not None else []
         self.causal_associations = [v if isinstance(v, CausalAssociation) else CausalAssociation(**as_dict(v)) for v in self.causal_associations]
@@ -1175,6 +1179,9 @@ class slots:
 slots.activity__has_direct_input = Slot(uri=GOCAM.has_direct_input, name="activity__has_direct_input", curie=GOCAM.curie('has_direct_input'),
                    model_uri=GOCAM.activity__has_direct_input, domain=None, range=Optional[Union[dict, MoleculeAssociation]])
 
+slots.activity__has_direct_output = Slot(uri=GOCAM.has_direct_output, name="activity__has_direct_output", curie=GOCAM.curie('has_direct_output'),
+                   model_uri=GOCAM.activity__has_direct_output, domain=None, range=Optional[Union[dict, MoleculeAssociation]])
+
 slots.activity__causal_associations = Slot(uri=GOCAM.causal_associations, name="activity__causal_associations", curie=GOCAM.curie('causal_associations'),
                    model_uri=GOCAM.activity__causal_associations, domain=None, range=Optional[Union[Union[dict, CausalAssociation], List[Union[dict, CausalAssociation]]]])
 

project/graphql/gocam.graphql

@@ -7,6 +7,7 @@ type Activity
     occursIn: CellularAnatomicalEntityAssociation
     partOf: BiologicalProcessAssociation
     hasDirectInput: MoleculeAssociation
+    hasDirectOutput: MoleculeAssociation
     causalAssociations: [CausalAssociation]
     provenances: [ProvenanceInfo]
   }

project/jsonld/gocam.context.jsonld

@@ -1,7 +1,7 @@
 {
    "comments": {
       "description": "Auto generated by LinkML jsonld context generator",
-      "generation_date": "2024-08-28T17:21:26",
+      "generation_date": "2024-08-30T10:47:20",
       "source": "gocam.yaml"
    },
    "@context": {
@@ -63,6 +63,10 @@
          "@type": "@id",
          "@id": "has_direct_input"
       },
+      "has_direct_output": {
+         "@type": "@id",
+         "@id": "has_direct_output"
+      },
       "id": "@id",
       "molecular_function": {
          "@type": "@id",

project/jsonld/gocam.jsonld

@@ -703,6 +703,20 @@
       "inlined": true,
       "@type": "SlotDefinition"
     },
+    {
+      "name": "activity__has_direct_output",
+      "description": "The output molecules that are directly produced by the activity",
+      "from_schema": "https://w3id.org/gocam",
+      "slot_uri": "https://w3id.org/gocam/has_direct_output",
+      "alias": "has_direct_output",
+      "owner": "Activity",
+      "domain_of": [
+        "Activity"
+      ],
+      "range": "MoleculeAssociation",
+      "inlined": true,
+      "@type": "SlotDefinition"
+    },
     {
       "name": "activity__causal_associations",
       "description": "The causal associations that connect this activity to other activities",
@@ -1374,6 +1388,7 @@
         "activity__occurs_in",
         "activity__part_of",
         "activity__has_direct_input",
+        "activity__has_direct_output",
         "activity__causal_associations",
         "activity__provenances"
       ],
@@ -1427,6 +1442,13 @@
           "inlined": true,
           "@type": "SlotDefinition"
         },
+        {
+          "name": "has_direct_output",
+          "description": "The output molecules that are directly produced by the activity",
+          "range": "MoleculeAssociation",
+          "inlined": true,
+          "@type": "SlotDefinition"
+        },
         {
           "name": "causal_associations",
           "description": "The causal associations that connect this activity to other activities",
@@ -2138,9 +2160,9 @@
   ],
   "metamodel_version": "1.7.0",
   "source_file": "gocam.yaml",
-  "source_file_date": "2024-08-28T16:22:21",
-  "source_file_size": 13188,
-  "generation_date": "2024-08-28T17:21:26",
+  "source_file_date": "2024-08-29T14:40:00",
+  "source_file_size": 13355,
+  "generation_date": "2024-08-30T10:47:20",
   "@type": "SchemaDefinition",
   "@context": [
     "project/jsonld/gocam.context.jsonld",

project/jsonschema/gocam.schema.json

@@ -26,6 +26,10 @@
                     "$ref": "#/$defs/MoleculeAssociation",
                     "description": "The input molecules that are directly consumed by the activity"
                 },
+                "has_direct_output": {
+                    "$ref": "#/$defs/MoleculeAssociation",
+                    "description": "The output molecules that are directly produced by the activity"
+                },
                 "id": {
                     "description": "Identifier of the activity unit. Should be in gocam namespace.",
                     "type": "string"