Basic validation of uploaded sequencing results

backend/antigenapi/views.py

@@ -596,10 +596,29 @@ def upload_sequencing_run_results(self, request, pk, submission_idx):
             raise ValidationError("file", "Results file should be a .zip file")
 
         # TODO: Validate submission_idx
+        try:
+            sr = SequencingRun.objects.get(pk=int(pk))
+        except SequencingRun.DoesNotExist:
+            raise ValidationError(
+                f"Sequencing run {pk} does not exist " "to attach results"
+            )
+
+        wells = [w["location"] for w in sr.wells if w["plate"] == int(submission_idx)]
+        if not wells:
+            raise ValidationError(
+                f"Plate index {submission_idx} not found in " "sequencing run {pk}"
+            )
 
         # Run bioinformatics using .zip file
         # print("Extracting zip file...")
         seq_data = load_sequences(results_file.temporary_file_path())
+        if len(seq_data) != len(wells):
+            raise ValidationError(
+                {
+                    "file": f"Upload contains data for {len(seq_data)} "
+                    f"wells, expected {len(wells)}"
+                }
+            )
 
         # Convert to FASTA in-memory (vquest api handles chunking to
         # max 50 seqs per file)

frontend/src/crudtemplates/ViewObjectPage.js

@@ -147,6 +147,7 @@ const ViewObjectPage = (props) => {
                     displayField(field, record, "ViewObjectPage", {
                       setRecord: setRecord,
                       setLoading: setLoading,
+                      setError: props.onSetError,
                     })}
                   {loading && (
                     <div className="h-2.5 bg-gray-300 w-12 rounded-full mb-2.5 rounded shadow animate-pulse"></div>

frontend/src/crudtemplates/utils.js

@@ -145,7 +145,17 @@ export const uploadSequencingResults = (event, props) => {
   ).then((res) => {
     props.setLoading(false);
     res.json().then((json) => {
-      props.setRecord(json);
+      if (res.status >= 200 && res.status < 300) {
+        props.setRecord(json);
+      } else {
+        if (typeof json === "string") {
+          props.setError(json);
+        } else if ("file" in json) {
+          props.setError("Problem with file: " + json["file"]);
+        } else {
+          props.setError("Error code " + res.status);
+        }
+      }
     });
   });
 };