feat: relax requirements on minimum information model components to g… (

#129) * feat: relax requirements on minimum information model components to generate nomenclature * feat: making assay metadata optional
cancervariants · Sep 12, 2023 · e082cb1 · e082cb1
1 parent fa4a080
commit e082cb1
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Showing 2 changed files with 10 additions and 10 deletions.
diff --git a/fusor/fusor.py b/fusor/fusor.py
@@ -194,15 +194,15 @@ def categorical_fusion(
     @staticmethod
     def assayed_fusion(
         structural_elements: AssayedFusionElements,
-        causative_event: CausativeEvent,
-        assay: Assay,
+        causative_event: Optional[CausativeEvent] = None,
+        assay: Optional[Assay] = None,
         regulatory_element: Optional[RegulatoryElement] = None,
     ) -> AssayedFusion:
         """Construct an assayed fusion object
         :param AssayedFusionElements structural_elements: elements constituting the
             fusion
-        :param Event causative_event: event causing the fusion
-        :param Assay assay: how knowledge of the fusion was obtained
+        :param Optional[Event] causative_event: event causing the fusion
+        :param Optional[Assay] assay: how knowledge of the fusion was obtained
         :param Optional[RegulatoryElement] regulatory_element: affected regulatory
             elements
         :return: Tuple containing optional AssayedFusion if construction successful,

diff --git a/fusor/models.py b/fusor/models.py
@@ -651,10 +651,10 @@ class Assay(BaseModelForbidExtra):
     """Information pertaining to the assay used in identifying the fusion."""
 
     type: Literal["Assay"] = "Assay"
-    assay_name: StrictStr
-    assay_id: CURIE
-    method_uri: CURIE
-    fusion_detection: Evidence
+    assay_name: Optional[StrictStr]
+    assay_id: Optional[CURIE]
+    method_uri: Optional[CURIE]
+    fusion_detection: Optional[Evidence]
 
     _get_assay_id_val = validator("assay_id", allow_reuse=True)(return_value)
     _get_method_uri_val = validator("method_uri", allow_reuse=True)(return_value)
@@ -730,8 +730,8 @@ class AssayedFusion(AbstractFusion):
 
     type: Literal[FUSORTypes.ASSAYED_FUSION] = FUSORTypes.ASSAYED_FUSION
     structural_elements: AssayedFusionElements
-    causative_event: CausativeEvent
-    assay: Assay
+    causative_event: Optional[CausativeEvent] = None
+    assay: Optional[Assay] = None
 
     class Config(BaseModelForbidExtra.Config):
         """Configure class."""