fix bug where region and strand were incorrect in templated sequence,…

… fix regulatory element missing field, pin pydantic version
cancervariants · Aug 3, 2024 · c4ffe6a · c4ffe6a
1 parent 3414fbe
commit c4ffe6a
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Showing 5 changed files with 7 additions and 5 deletions.
diff --git a/...nt/src/components/Pages/Structure/Input/RegulatoryElementInput/RegulatoryElementInput.tsx b/...nt/src/components/Pages/Structure/Input/RegulatoryElementInput/RegulatoryElementInput.tsx
@@ -85,6 +85,7 @@ const RegulatoryElementInput: React.FC<RegulatoryElementInputProps> = ({
           }
           const newRegElement: ClientRegulatoryElement = {
             ...reResponse.regulatory_element,
+            elementId: element.elementId,
             displayClass: regulatoryClassItems[elementClass][1],
             nomenclature: nomenclatureResponse.nomenclature || "",
           };

diff --git a/...nts/Pages/Structure/Input/TemplatedSequenceElementInput/TemplatedSequenceElementInput.tsx b/...nts/Pages/Structure/Input/TemplatedSequenceElementInput/TemplatedSequenceElementInput.tsx
@@ -24,7 +24,6 @@ const TemplatedSequenceElementInput: React.FC<
   const [strand, setStrand] = useState<string>(
     element.strand === 1 ? "+" : "-"
   );
-  console.log(element.inputStart);
   const [startPosition, setStartPosition] = useState<string>(
     element.inputStart !== null && element.inputStart !== undefined
       ? `${element.inputStart}`
@@ -86,8 +85,10 @@ const TemplatedSequenceElementInput: React.FC<
               ...templatedSequenceResponse.element,
               elementId: element.elementId,
               nomenclature: nomenclatureResponse.nomenclature,
-              region: element.region,
-              strand: element.strand,
+              region:
+                templatedSequenceResponse?.element?.region || element.region,
+              strand:
+                templatedSequenceResponse?.element?.strand || element.strand,
               inputChromosome: chromosome,
               inputStart: startPosition,
               inputEnd: endPosition,

diff --git a/client/src/components/Pages/Summary/Main/Summary.tsx b/client/src/components/Pages/Summary/Main/Summary.tsx
@@ -50,6 +50,7 @@ export const Summary: React.FC<Props> = ({ setVisibleTab }) => {
   const fusorifyStructuralElement = (
     element: ClientElementUnion
   ): ElementUnion => {
+    console.log(element);
     switch (element.type) {
       case "GeneElement":
         const geneElement: GeneElement = {

diff --git a/server/pyproject.toml b/server/pyproject.toml
@@ -30,7 +30,7 @@ dependencies = [
     "botocore",
     "fusor ~= 0.2.0",
     "cool-seq-tool ~= 0.5.1",
-    "pydantic >= 2.0",
+    "pydantic == 2.4.2",
     "gene-normalizer ~= 0.4.0",
 ]
 dynamic = ["version"]

diff --git a/server/src/curfu/routers/validate.py b/server/src/curfu/routers/validate.py
@@ -26,7 +26,6 @@ def validate_fusion(request: Request, fusion: dict = Body()) -> ResponseDict:
     """
     fusor = request.app.state.fusor
     response = {}
-    verified_fusion = fusor.fusion(**fusion)
     try:
         verified_fusion = fusor.fusion(**fusion)
     except FUSORParametersException as e: