updating unit tests

beacon/connections/mongo/Makefile

@@ -5,9 +5,15 @@ build:
 	docker cp data/datasets.json mongoprod:tmp/datasets.json
 	docker cp data/genomicVariations.json mongoprod:tmp/genomicVariations.json
 	docker cp data/individuals.json mongoprod:tmp/individuals.json
+	docker cp data/runs.json mongoprod:tmp/runs.json
+	docker cp data/targets.json mongoprod:tmp/targets.json
+	docker cp data/caseLevelData.json mongoprod:tmp/caseLevelData.json
 	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/datasets.json --collection datasets
 	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/individuals.json --collection individuals
 	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/cohorts.json --collection cohorts
 	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/analyses.json --collection analyses
 	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/biosamples.json --collection biosamples
-	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/genomicVariations.json --collection genomicVariations
+	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/genomicVariations.json --collection genomicVariations
+	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/runs.json --collection runs
+	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/targets.json --collection targets
+	docker exec mongoprod mongoimport --jsonArray --uri "mongodb://root:[email protected]:27017/beacon?authSource=admin" --file /tmp/caseLevelData.json --collection caseLevelData

beacon/connections/mongo/analyses.py

@@ -95,4 +95,5 @@ def get_variants_of_analysis(self, entry_id: Optional[str], qparams: RequestPara
     if limit > 100 or limit == 0:
         limit = 100# pragma: no cover
     idq="caseLevelData.biosampleId"
-    count, dataset_count, docs = get_docs_by_response_type(self, include, query, dataset, limit, skip, mongo_collection, idq)
+    count, dataset_count, docs = get_docs_by_response_type(self, include, query, dataset, limit, skip, mongo_collection, idq)
+    return schema, count, dataset_count, docs, dataset

beacon/connections/mongo/biosamples.py

@@ -122,4 +122,5 @@ def get_runs_of_biosample(self, entry_id: Optional[str], qparams: RequestParams,
     if limit > 100 or limit == 0:
         limit = 100# pragma: no cover
     idq="biosampleId"
-    count, dataset_count, docs = get_docs_by_response_type(self, include, query, dataset, limit, skip, mongo_collection, idq)
+    count, dataset_count, docs = get_docs_by_response_type(self, include, query, dataset, limit, skip, mongo_collection, idq)
+    return schema, count, dataset_count, docs, dataset