feat: Add hostOrganism join from Rails (#193)

chanzuckerberg · Mar 14, 2024 · 7446701 · 7446701
1 parent 0d33444
commit 7446701
Showing 1 changed file with 23 additions and 1 deletion.
diff --git a/resolvers.ts b/resolvers.ts
@@ -884,34 +884,56 @@ export const resolvers: Resolvers = {
           ).samples.map(sample => [sample.id, sample]),
         );
 
+        console.log("bchu1: " + JSON.stringify(railsSamplesById));
         for (const nextGenSequencingRead of nextGenSequencingReads) {
+          console.log("bchu2: " + JSON.stringify(nextGenSequencingReads));
           const nextGenSample = nextGenSequencingRead.sample;
+          console.log("bchu3: " + JSON.stringify(nextGenSample));
           const railsSample = railsSamplesById.get(nextGenSample.railsSampleId);
+          console.log("bchu4: " + JSON.stringify(railsSample));
           if (railsSample === undefined) {
             continue;
           }
 
           const railsMetadata = railsSample.details?.metadata;
+          console.log("bchu5: " + JSON.stringify(railsMetadata));
           const railsDbSample = railsSample.details?.db_sample;
+          console.log("bchu6: " + JSON.stringify(railsDbSample));
 
           nextGenSequencingRead.nucleicAcid =
             railsMetadata?.nucleotide_type ?? "";
+          console.log("bchu7: " + JSON.stringify(nextGenSequencingRead));
           nextGenSample.collectionLocation =
             railsMetadata?.collection_location_v2 ?? "";
+          console.log("bchu8: " + JSON.stringify(nextGenSample));
           nextGenSample.sampleType = railsMetadata?.sample_type ?? "";
+          console.log("bchu9: " + JSON.stringify(nextGenSample));
           nextGenSample.waterControl = railsMetadata?.water_control === "Yes";
+          console.log("bchu10: " + JSON.stringify(nextGenSample));
           nextGenSample.notes = railsDbSample?.sample_notes;
+          console.log("bchu11: " + JSON.stringify(nextGenSample));
           nextGenSample.uploadError = railsDbSample?.upload_error;
+          console.log("bchu12: " + JSON.stringify(nextGenSample));
+          nextGenSample.hostOrganism =
+            railsDbSample?.host_genome_name != null
+              ? {
+                  name: railsDbSample.host_genome_name,
+                }
+              : null;
+          console.log("bchu13: " + JSON.stringify(nextGenSample));
           nextGenSample.ownerUserName = railsSample.details?.uploader?.name;
+          console.log("bchu14: " + JSON.stringify(nextGenSample));
           nextGenSample.collection = {
             name: railsSample.details?.derived_sample_output?.project_name,
             public: railsSample.public === 1,
           };
+          console.log("bchu15: " + JSON.stringify(nextGenSample));
           nextGenSample.metadatas = {
             edges: getMetadataEdges(railsMetadata),
           };
+          console.log("bchu16: " + JSON.stringify(nextGenSample));
         }
-
+        console.log("bchu17: " + JSON.stringify(nextGenSequencingReads));
         return nextGenSequencingReads;
       }