Merge pull request #79 from bento-platform/refact/new-katsu-private-o…

…verview

refact(utils): support new Katsu private overview response format

bento_beacon/utils/beacon_response.py

@@ -43,12 +43,15 @@ def add_overview_stats_to_response():
 
 
 def package_biosample_and_experiment_stats(stats):
-    biosamples = stats.get("biosamples", {})
-    experiments = stats.get("experiments", {})
+    phenopacket_dts_stats = stats.get("phenopacket", {}).get("data_type_specific", {})
+    experiment_stats = stats.get("experiment", {}).get("data_type_specific", {}).get("experiments", {})
+
+    biosamples = phenopacket_dts_stats.get("biosamples", {})
     biosamples_count = biosamples.get("count", 0)
-    experiments_count = experiments.get("count", 0)
     sampled_tissue = biosamples.get("sampled_tissue", {})
-    experiment_type = experiments.get("experiment_type", {})
+
+    experiments_count = experiment_stats.get("count", 0)
+    experiment_type = experiment_stats.get("experiment_type", {})
 
     # convert to bento_public response format
     sampled_tissue_data = [{"label": key, "value": value} for key, value in sampled_tissue.items()]

bento_beacon/utils/katsu_utils.py

@@ -270,7 +270,7 @@ def search_summary_statistics(ids):
 
 
 def overview_statistics():
-    return katsu_get(current_app.config["KATSU_PRIVATE_OVERVIEW"]).get("data_type_specific", {})
+    return katsu_get(current_app.config["KATSU_PRIVATE_OVERVIEW"])
 
 
 def katsu_censorship_settings() -> tuple[int | None, int | None]: